Citrus Sinensis ID: 007255

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-
Protein Sequence
MESKGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKSQSPKSSGRVESSTSRGSKNKKKKLVSVFSVTSCVVSIAILAAAKYFSTHANRTPNELVVT
Secondary Structure (PSIPRED)
cccccccccccccccccccccccHHHHHHHHHHHHHcccccHHHHHHcccccccEEEEEcccccHHHHHHHHHHHHHccEEEEEcccccccccccHHHHHHHHHHHHHHHHccccccEEEEEEcccccccccccccccHHHHHHHHHHHHHcccccccccccEEEEEEccccccccHHccccccccEEEEcccccHHHHHHHHHHHHccccccccccHHHHHHHcccccHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHccccccccccEEcccccccccccHHHHHHHHHHHHHHHHccHHHHHHcccccccEEEEEccccccHHHHHHHHHHHccccEEEEcccccccccccHHHHHHHHHHHHHHHccccEEEEEccccccccccccccccccHHHHHHHHHHHHHHcccccccEEEEEEcccccccccccccccccccEEEcccccHHHHHHHHHHHcccccccccccHHHHHHHcccccHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccccccccccccccccHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccEccccccccccHHccccHHHHHHHHHHHHccccccHHHHHHcccccccEEEEEccccccHHHHHHHHHHHcccEEEEEccHHHHHHHHcHcHHHHHHHHHHHHHHHHccccEEEEEEcHHHccccccccccHHHHHHHHHHHHHccccccccccccEEEEEEccccccccHHHcccccccEEEEEccccHHHHHHHHHHHHccccccccccHHHHHHHHccccHHHHHHHHHHHHHHHHHHHccccccHHcccccHHHHHHHHHcccccccEEEEEEcccccHHHcccHHHHHHHHHHHHccccccHHHHHHcccccccEEEEEcccccHHHHHHHHHHHHccccEEEEccHHHHHHHHcHcHHHHHHHHHHHHHcccEEEEEccHHHHcHHccccccccccHHHHHHHHHHHHHcccHccccEEEEEEccccccccHHHcccccccEEEEEccccHHHHHHHHHHHHccccccccccHHHHHHHHccccHHcHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccccccccccccccccEEEEcccccHHHHHHHHHHHHHHcccccccccccEEEc
Coil and Loop (DISEMBL)
meskgrimsehnEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLglkwprglllygppgtgktSLVRAVVRECGAhltvisphsvhkahvgeSEKALREAFSQASshalsgkpsvvFIDEidalcprrdhrreQDVRIASQLFTlmdsnkpsktsvpHVVVVAStnrvdaidpalrrsgrfdaevevtvPTAEERFEILKLYTkkvpldanvDLEAIATSCNGYVGADLEALCREATMSAVkrssdanecAGVLSVTMEDWRharsvvgpsitrgvtveipkvtwediggLRDLKKKLQQAVewpikhstafsrlgispvrgallhgppgcskTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARlaapsiiffdeadvvgakrggssstsITVGERLLSTLLTEMDGLEQAKGILVLAAtnrphaidaalmrpgrfdlvlyvpppdleaRHEILRVHtrnmkvgddvdlRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVkdslkpaltkeEIDSYssfmksqspkssgrvesstsrgsknkkkKLVSVFSVTSCVVSIAILAAAKYFsthanrtpnelvvt
Flexible Loop (DISEMBL)
meskgrimsehnekwkaeeaigGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHltvisphsvhkAHVGESEKALREAFSQASshalsgkpsvvFIDEIDALcprrdhrreQDVRIASQLftlmdsnkpsktsvPHVVVVAstnrvdaidpalrrsgrfdaevevtvptaeeRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSavkrssdaneCAGVLSVTmedwrharsvvgpsitrgvtveipkvtwedigglRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGakrggssstsitvGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEIlrvhtrnmkvgddvDLRSIAEETElftgaeleGLCREAGIVALREDISatavrnrhfqtvkdslkpaltkEEIDsyssfmksqspkssgrvesstsrgsknkkkklvSVFSVTSCVVSIAILAAAKyfsthanrtpnelvvt
Low Complexity Region (SEG)
MESKGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDaevevtvptaeeRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCskttlakaaahaaeasffslsGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDsyssfmksqspkssGRVESSTSRGSKNKKKKLvsvfsvtscvvsIAILAAAKYFSTHANRTPNELVVT
Disordered region (IsUnstruct)
********************IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV****************************SVVFIDEIDALCPR********VRIASQLFTL**********VPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVK***DANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR******SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQT**********************************************LVSVFSVTSCVVSIAILAAAKYFSTH***********
Disordered Region (DISOPRED)
****************AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALC***************QLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRS********VLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADV******************LLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSL******EEIDS*******************************VSVFSVTSCVVSIAILAAAKYFSTHANRTPNELVVT
Disordered Region (DISEMBL)
*********EHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH**************************SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREAT**********NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVG**********ITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDS******************************LVSVFSVTSCVVSIAILAAAKYFSTHANRTPNELVVT
Disordered Region (DISPRO)
*****RIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR*HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRG******ITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKSQSP***************NKKKKLVSVFSVTSCVVSIAILAAAKYFSTHANRTPNELVVT
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MESKGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKSQSPKSSGRVESSTSRGSKNKKKKLVSVFSVTSCVVSIAILAAAKYFSTHANRTPNELVVT
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	611	2.2.26 [Sep-21-2011]
Q9ZPR1	603	Cell division control pro	yes	no	0.955	0.968	0.746	0.0
O28972	733	Cell division cycle prote	yes	no	0.855	0.713	0.458	1e-139
Q58556	903	Cell division cycle prote	yes	no	0.891	0.603	0.442	1e-135
O05209	745	VCP-like ATPase OS=Thermo	yes	no	0.882	0.723	0.436	1e-134
Q8NB90	893	Spermatogenesis-associate	yes	no	0.851	0.582	0.452	1e-134
Q3UMC0	893	Spermatogenesis-associate	yes	no	0.836	0.572	0.454	1e-134
Q07590	780	Protein SAV OS=Sulfolobus	no	no	0.793	0.621	0.455	1e-128
P23787	805	Transitional endoplasmic	N/A	no	0.821	0.623	0.442	1e-127
P54774	807	Cell division cycle prote	no	no	0.811	0.614	0.435	1e-127
O60058	809	ATPase family gene 2 prot	yes	no	0.849	0.641	0.440	1e-127

>sp|Q9ZPR1|CD48B_ARATH Cell division control protein 48 homolog B OS=Arabidopsis thaliana GN=CDC48B PE=2 SV=1

 Score =  871 bits (2251), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 448/600 (74%), Positives = 508/600 (84%), Gaps = 16/600 (2%)

Query: 12  NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVR 71
           NEKW+AE  IGGN  A++ALRELI FP  Y  +A+ LGLKWPRGLLLYGPPGTGKTSLVR
Sbjct: 15  NEKWRAEAEIGGNERALQALRELIIFPFRYPLEARTLGLKWPRGLLLYGPPGTGKTSLVR 74

Query: 72  AVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPR 131
           AVV+EC AHL V+SPHSVH+AH GESEK LREAF++ASSHA+S KPSV+FIDEID LCPR
Sbjct: 75  AVVQECDAHLIVLSPHSVHRAHAGESEKVLREAFAEASSHAVSDKPSVIFIDEIDVLCPR 134

Query: 132 RDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEV 191
           RD RREQDVRIASQLFTLMDSNKPS +S P VVVVASTNRVDAIDPALRR+GRFDA VEV
Sbjct: 135 RDARREQDVRIASQLFTLMDSNKPS-SSAPRVVVVASTNRVDAIDPALRRAGRFDALVEV 193

Query: 192 TVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA 251
           + P  E+R +IL+LYTKKV LD +VDL+AIA SCNGYVGADLEALCREAT+SA KRSSD+
Sbjct: 194 STPNEEDRLKILQLYTKKVNLDPSVDLQAIAISCNGYVGADLEALCREATISASKRSSDS 253

Query: 252 NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIK 311
                 L +T +D++ A+SVVGPSI RG+TVEIPKVTW+D+GGL+DLKKKLQQAVEWPIK
Sbjct: 254 ------LILTSQDFKIAKSVVGPSINRGITVEIPKVTWDDVGGLKDLKKKLQQAVEWPIK 307

Query: 312 HSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEAL 371
           HS AF ++GISP+RG LLHGPPGCSKTTLAKAAA+AA+ASFFSLS AEL+SMYVGE EAL
Sbjct: 308 HSAAFVKMGISPMRGILLHGPPGCSKTTLAKAAANAAQASFFSLSCAELFSMYVGEGEAL 367

Query: 372 LRNTFQRARLAAPSIIFFDEADVVGAKRGG-SSSTSITVGERLLSTLLTEMDGLEQAKGI 430
           LRNTFQRARLA+PSIIFFDEADVV  KRG  SSS S TVGERLLSTLLTEMDGLE+AKGI
Sbjct: 368 LRNTFQRARLASPSIIFFDEADVVACKRGDESSSNSSTVGERLLSTLLTEMDGLEEAKGI 427

Query: 431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAE 490
           LVLAATNRP+AIDAALMRPGRFDLVLYVPPPDLEAR EIL+VHTRNM +GDDVDLR IAE
Sbjct: 428 LVLAATNRPYAIDAALMRPGRFDLVLYVPPPDLEARFEILQVHTRNMTLGDDVDLRKIAE 487

Query: 491 ETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMK 550
           ET+LFTGAELEGLCRE+G V+LRE+I+ATAV NRHFQT K SLKPALT EE+++YSSF  
Sbjct: 488 ETDLFTGAELEGLCRESGTVSLRENIAATAVFNRHFQTAKSSLKPALTIEEVETYSSFR- 546

Query: 551 SQSPKSSGRVESSTSRGSKNKKKKLVSVFSVTSCVVSIAILAAAKYFSTHANRTPNELVV 610
               K++ R +S     +K K    V  FS    V+S+ +LA   Y+  H   T +EL+V
Sbjct: 547 ----KAAKRSDSKPIPINKKKATSTVFGFSWQLGVLSLLLLATGNYYFNH---TKHELLV 599

Probably functions in cell division and growth processes. Interacts with certain SNAREs as part of specialized membrane fusion events where vesicles from the same organelle fuse (homotypic fusion).
Arabidopsis thaliana (taxid: 3702)

>sp|O28972|Y1297_ARCFU Cell division cycle protein 48 homolog AF_1297 OS=Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126) GN=AF_1297 PE=3 SV=1

 Score =  494 bits (1271), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 255/556 (45%), Positives = 357/556 (64%), Gaps = 33/556 (5%)

Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           E IGG +  +  +RE+I  PL +    Q+LG++ P+G+LLYGPPGTGKT + +AV  E  
Sbjct: 182 EDIGGLKRELRLVREMIELPLKHPELFQRLGIEPPKGVLLYGPPGTGKTLIAKAVANEVD 241

Query: 79  AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RRE 137
           AH   IS   +   + GESE+ LRE F +A  +A    PS++FIDEID++ P+R+    E
Sbjct: 242 AHFIPISGPEIMSKYYGESEQRLREIFEEAKENA----PSIIFIDEIDSIAPKREEVTGE 297

Query: 138 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE 197
            + R+ +QL  LMD  +        V+V+A+TNR DAIDPALRR GRFD E+E+ VP  E
Sbjct: 298 VERRVVAQLLALMDGLEARG----DVIVIAATNRPDAIDPALRRPGRFDREIEIGVPDKE 353

Query: 198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKR-----SSDAN 252
            R EIL+++T+K+PL  +VDLE +A   NG+VGADLEALC+EA M A++R       +A 
Sbjct: 354 GRKEILEIHTRKMPLAEDVDLEELAELTNGFVGADLEALCKEAAMHALRRVLPEIDIEAE 413

Query: 253 ECAGV----LSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 308
           E        L VT ED+  A   + PS  R V VE+P V WEDIGGL   K++L +AVEW
Sbjct: 414 EIPAEVIENLKVTREDFMEALKNIEPSAMREVLVEVPNVKWEDIGGLEHAKQELMEAVEW 473

Query: 309 PIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGES 368
           P+K+   F    I P RG LL GPPG  KT LAKA A+ + A+F S+ G EL S +VGES
Sbjct: 474 PLKYPEVFRAANIKPPRGILLFGPPGTGKTLLAKAVANESNANFISVKGPELLSKWVGES 533

Query: 369 EALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
           E  +R  F++AR  AP +IFFDE D +  +RGG   + +T  ER++S LLTE+DGLE+ K
Sbjct: 534 EKHVREMFRKARQVAPCVIFFDEIDSLAPRRGGIGDSHVT--ERVVSQLLTELDGLEELK 591

Query: 429 GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSI 488
            ++V+AATNRP  ID AL+RPGR +  +Y+PPPD +AR EI ++H R   + DDV++  +
Sbjct: 592 DVVVIAATNRPDMIDPALLRPGRLERHIYIPPPDKKARVEIFKIHLRGKPLADDVNIEEL 651

Query: 489 AEETELFTGAELEGLCREAGIVALREDISATAVR-------------NRHFQTVKDSLKP 535
           AE+TE ++GA++E +CREAG++A+RE I     R              +HF+     ++P
Sbjct: 652 AEKTEGYSGADIEAVCREAGMLAIRELIKPGMTREEAKEAAKKLKITKKHFEEALKKVRP 711

Query: 536 ALTKEEIDSYSSFMKS 551
           +LTKE+++ Y   ++ 
Sbjct: 712 SLTKEDVEKYEKLIED 727

Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126) (taxid: 224325)

>sp|Q58556|Y1156_METJA Cell division cycle protein 48 homolog MJ1156 OS=Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) GN=MJ1156 PE=3 SV=1

 Score =  484 bits (1245), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 256/579 (44%), Positives = 377/579 (65%), Gaps = 34/579 (5%)

Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           E IGG +  V+ +RE+I  P+ +    +KLG++ P+G+LL GPPGTGKT L +AV  E G
Sbjct: 179 EDIGGLKEEVKKVREMIELPMRHPELFEKLGIEPPKGVLLVGPPGTGKTLLAKAVANEAG 238

Query: 79  AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-E 137
           A+  VI+   +   +VGE+E+ LR+ F +A  +A    PS++FIDEIDA+ P+RD    E
Sbjct: 239 ANFYVINGPEIMSKYVGETEENLRKIFEEAEENA----PSIIFIDEIDAIAPKRDEATGE 294

Query: 138 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE 197
            + R+ +QL TLMD  K        VVV+ +TNR +A+DPALRR GRFD E+ + VP  E
Sbjct: 295 VERRLVAQLLTLMDGLKGRG----QVVVIGATNRPNALDPALRRPGRFDREIVIGVPDRE 350

Query: 198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKR---SSD---- 250
            R EIL+++T+ +PL  +VDL+ +A   +G+VGADL ALC+EA M A++R   S D    
Sbjct: 351 GRKEILQIHTRNMPLAEDVDLDYLADVTHGFVGADLAALCKEAAMRALRRVLPSIDLEAE 410

Query: 251 --ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 308
               E    L VTM+D++ A   V PS  R V VE+P V WEDIGGL ++K++L++AVEW
Sbjct: 411 EIPKEVLDNLKVTMDDFKEALKDVEPSAMREVLVEVPNVKWEDIGGLEEVKQELREAVEW 470

Query: 309 PIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGES 368
           P+K    F ++G+ P +G LL GPPG  KT LAKA A+ + A+F S+ G E++S +VGES
Sbjct: 471 PLKAKEVFEKIGVRPPKGVLLFGPPGTGKTLLAKAVANESGANFISVKGPEIFSKWVGES 530

Query: 369 EALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
           E  +R  F++AR +AP IIFFDE D +  KRG   S+++T  +++++ LLTE+DG+E+ K
Sbjct: 531 EKAIREIFRKARQSAPCIIFFDEIDAIAPKRGRDLSSAVT--DKVVNQLLTELDGMEEPK 588

Query: 429 GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSI 488
            ++V+AATNRP  ID AL+RPGR D V+ VP PD +AR +I ++HTR+M + +DV+L  +
Sbjct: 589 DVVVIAATNRPDIIDPALLRPGRLDRVILVPVPDEKARLDIFKIHTRSMNLAEDVNLEEL 648

Query: 489 AEETELFTGAELEGLCREAGIVALREDISA---TAVRNR----HFQTVKDSLKPALTKEE 541
           A++TE +TGA++E LCREA ++A+RE I       V+ R    + Q++  + + A  +  
Sbjct: 649 AKKTEGYTGADIEALCREAAMLAVRESIGKPWDIEVKLRELINYLQSISGTFRAAAVE-- 706

Query: 542 IDSYSSFMKSQSPKSSGRVESSTSRGSKNKKKKLVSVFS 580
               +S +K+   + S   E+      KN   K++SV S
Sbjct: 707 ---LNSVIKATKERESA--EAGEFSELKNAIGKIISVLS 740

Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (taxid: 243232)

>sp|O05209|VAT_THEAC VCP-like ATPase OS=Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165) GN=vat PE=1 SV=1

 Score =  480 bits (1235), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 246/563 (43%), Positives = 359/563 (63%), Gaps = 24/563 (4%)

Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           E IGG    +  +RE+I  PL +    ++LG+  P+G++LYGPPGTGKT + RAV  E G
Sbjct: 190 EDIGGLSEQLGKIREMIELPLKHPELFERLGITPPKGVILYGPPGTGKTLIARAVANESG 249

Query: 79  AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RRE 137
           A+   I+   +   + G+SE+ LRE FS+A   A    PS++FIDEID++ P+R+  + E
Sbjct: 250 ANFLSINGPEIMSKYYGQSEQKLREIFSKAEETA----PSIIFIDEIDSIAPKREEVQGE 305

Query: 138 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE 197
            + R+ +QL TLMD  K       HV+V+ +TNR+DAIDPALRR GRFD E+E+ VP   
Sbjct: 306 VERRVVAQLLTLMDGMKERG----HVIVIGATNRIDAIDPALRRPGRFDREIEIGVPDRN 361

Query: 198 ERFEILKLYTKKVPL-----DANVDLEAIATSCNGYVGADLEALCREATMSAVKR----- 247
            R EIL ++T+ +PL     + N  LE +A    G+VGADL AL RE+ M+A++R     
Sbjct: 362 GRKEILMIHTRNMPLGMSEEEKNKFLEEMADYTYGFVGADLAALVRESAMNALRRYLPEI 421

Query: 248 ---SSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQ 304
                   E    + VT +D+++A   + PS  R V VE+P V W+DIGGL D+K+++++
Sbjct: 422 DLDKPIPTEILEKMVVTEDDFKNALKSIEPSSLREVMVEVPNVHWDDIGGLEDVKREIKE 481

Query: 305 AVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY 364
            VE P+     F RLGI P +G LL+GPPG  KT LAKA A  + A+F S+ G E+ S +
Sbjct: 482 TVELPLLKPDVFKRLGIRPSKGFLLYGPPGVGKTLLAKAVATESNANFISIKGPEVLSKW 541

Query: 365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL 424
           VGESE  +R  F++A+  AP+I+F DE D +  +RG +S + +T  ER+++ LLT +DG+
Sbjct: 542 VGESEKAIREIFKKAKQVAPAIVFLDEIDSIAPRRGTTSDSGVT--ERIVNQLLTSLDGI 599

Query: 425 EQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVD 484
           E   G++V+ ATNRP  +D AL+R GRFD ++Y+PPPD EAR  IL+VHT+NM +  DVD
Sbjct: 600 EVMNGVVVIGATNRPDIMDPALLRAGRFDKLIYIPPPDKEARLSILKVHTKNMPLAPDVD 659

Query: 485 LRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDS 544
           L  IA+ TE + GA+LE LCREAG+ A RE+  AT+V  ++F     +++P++ +E I  
Sbjct: 660 LNDIAQRTEGYVGADLENLCREAGMNAYRENPDATSVSQKNFLDALKTIRPSVDEEVIKF 719

Query: 545 YSSFMKSQSPKSSGRVESSTSRG 567
           Y +  ++ S   S R +    +G
Sbjct: 720 YRTLSETMSKSVSERRKQLQDQG 742

Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165) (taxid: 273075)

>sp|Q8NB90|SPAT5_HUMAN Spermatogenesis-associated protein 5 OS=Homo sapiens GN=SPATA5 PE=1 SV=3

 Score =  479 bits (1234), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 242/535 (45%), Positives = 353/535 (65%), Gaps = 15/535 (2%)

Query: 10  EHNEKWKAE-EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTS 68
           E + ++K   + IGG  + ++A+RE+I  PL      +  G+  PRG+LLYGPPGTGKT 
Sbjct: 343 EQDNQFKVTYDMIGGLSSQLKAIREIIELPLKQPELFKSYGIPAPRGVLLYGPPGTGKTM 402

Query: 69  LVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL 128
           + RAV  E GA+++VI+   +     GE+E  LR+ F++A+       PS++FIDE+DAL
Sbjct: 403 IARAVANEVGAYVSVINGPEIISKFYGETEAKLRQIFAEATLR----HPSIIFIDELDAL 458

Query: 129 CPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDA 187
           CP+R+  + E + R+ + L TLMD    S+ S   V+V+ +TNR  A+D ALRR GRFD 
Sbjct: 459 CPKREGAQNEVEKRVVASLLTLMDGIG-SEVSEGQVLVLGATNRPHALDAALRRPGRFDK 517

Query: 188 EVEVTVPTAEERFEILKLYTKKVP-LDANVDLEAIATSCNGYVGADLEALCREATMSAVK 246
           E+E+ VP A++R +IL+   ++VP L    +L  +A S +GYVGADL+ LC EA + A++
Sbjct: 518 EIEIGVPNAQDRLDILQKLLRRVPHLLTEAELLQLANSAHGYVGADLKVLCNEAGLCALR 577

Query: 247 R--SSDAN----ECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKK 300
           R      N    + AG++ +T++D+  A + + PS  R + +++P V+W DIGGL  +K 
Sbjct: 578 RILKKQPNLPDVKVAGLVKITLKDFLQAMNDIRPSAMREIAIDVPNVSWSDIGGLESIKL 637

Query: 301 KLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL 360
           KL+QAVEWP+KH  +F R+GI P +G LL+GPPGCSKT +AKA A+ +  +F ++ G EL
Sbjct: 638 KLEQAVEWPLKHPESFIRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPEL 697

Query: 361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTE 420
            + YVGESE  +R TF++AR  APSIIFFDE D +  +R GSS  +  V +R+L+ LLTE
Sbjct: 698 MNKYVGESERAVRETFRKARAVAPSIIFFDELDALAVER-GSSLGAGNVADRVLAQLLTE 756

Query: 421 MDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG 480
           MDG+EQ K + +LAATNRP  ID ALMRPGR D ++YVP PD   R EI ++   +M V 
Sbjct: 757 MDGIEQLKDVTILAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREIFKLQFHSMPVS 816

Query: 481 DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKP 535
           ++VDL  +  +T+ ++GAE+  +CREA ++AL EDI A  +  RHF     ++ P
Sbjct: 817 NEVDLDELILQTDAYSGAEIVAVCREAALLALEEDIQANLIMKRHFTQALSTVTP 871

May be involved in morphological and functional mitochondrial transformations during spermatogenesis.

Homo sapiens (taxid: 9606)

>sp|Q3UMC0|SPAT5_MOUSE Spermatogenesis-associated protein 5 OS=Mus musculus GN=Spata5 PE=2 SV=2

 Score =  478 bits (1231), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 239/526 (45%), Positives = 352/526 (66%), Gaps = 15/526 (2%)

Query: 10  EHNEKWKAE-EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTS 68
           E + ++K   + IGG  + ++A+RE+I  PL      +  G+  PRGLLLYGPPGTGKT 
Sbjct: 343 EQDSQFKVTYDMIGGLNSQLKAIREIIELPLKQPELFKSYGIPAPRGLLLYGPPGTGKTM 402

Query: 69  LVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL 128
           + RAV  E GA+++VI+   +     GE+E  LR+ F++A+       PS++FIDE+DAL
Sbjct: 403 IARAVANEVGAYVSVINGPEIISKFYGETEARLRQIFAEATLR----HPSIIFIDELDAL 458

Query: 129 CPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDA 187
           CP+R+  + E + R+ + L TLMD    S+ S   V+V+ +TNR  A+D ALRR GRFD 
Sbjct: 459 CPKREGAQSEVEKRVVASLLTLMDGIG-SEGSEGRVLVLGATNRPQALDAALRRPGRFDK 517

Query: 188 EVEVTVPTAEERFEILKLYTKKVP-LDANVDLEAIATSCNGYVGADLEALCREATMSAVK 246
           E+E+ +P A++R +IL+   ++VP L    +L  +A + +GYVGADL+ALC EA + A++
Sbjct: 518 EIEIGIPNAQDRLDILQKLLRRVPHLLTKAELLRLANNAHGYVGADLKALCNEAGLHALR 577

Query: 247 R------SSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKK 300
           R      +   ++ AG++ +T+ D+    + + PS  R V +++P V+W DIGGL ++K 
Sbjct: 578 RVLRKQPNLPDSKVAGMVKITLNDFLQGMNDIRPSAMREVAIDVPNVSWSDIGGLENIKL 637

Query: 301 KLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL 360
           KL+QAVEWP+KH  +F+R+GI P +G LL+GPPGCSKT +AKA A+ +  +F ++ G EL
Sbjct: 638 KLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPEL 697

Query: 361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTE 420
            + YVGESE  +R  F++AR  APSIIFFDE D +  +R GSSS +  V +R+L+ LLTE
Sbjct: 698 MNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVER-GSSSGAGNVADRVLAQLLTE 756

Query: 421 MDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG 480
           MDG+EQ K + VLAATNRP  ID ALMRPGR D ++YVP PD   R EIL +   +M + 
Sbjct: 757 MDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPIS 816

Query: 481 DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHF 526
           ++VDL  +  +T+ ++GAE+  +C+EA ++AL E+I A  +  RHF
Sbjct: 817 NEVDLDELVLQTDTYSGAEIIAVCKEAALLALEENIKADCIMKRHF 862

May be involved in morphological and functional mitochondrial transformations during spermatogenesis.

Mus musculus (taxid: 10090)

>sp|Q07590|SAV_SULAC Protein SAV OS=Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770) GN=sav PE=3 SV=2

 Score =  460 bits (1183), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 231/507 (45%), Positives = 333/507 (65%), Gaps = 22/507 (4%)

Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           E IG    A + +RE++ +P+ +    Q+LG+  P+G+LLYGPPGTGKT L RA+  E G
Sbjct: 212 EDIGDLEEAKQKIREIVEWPMRHPELFQRLGIDPPKGILLYGPPGTGKTLLARALANEIG 271

Query: 79  AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRRE 137
           A+   ++   +     GESE+ +RE F +A  +A    PS++FIDEIDA+ P+R D   E
Sbjct: 272 AYFITVNGPEIMSKFYGESEQRIREIFKEAEENA----PSIIFIDEIDAIAPKREDVTGE 327

Query: 138 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE 197
            + R+ +QL TLMD  K        V+V+ +TNR DAIDPALRR GRFD E+E+  P  +
Sbjct: 328 VEKRVVAQLLTLMDGIKGRG----RVIVIGATNRPDAIDPALRRPGRFDREIEIRPPDTK 383

Query: 198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN----- 252
            R +IL+++T+ +P+  +VDL+ +A    GY GADL AL +EA + A++R  D       
Sbjct: 384 GRKDILQVHTRNMPITDDVDLDKLAEMTYGYTGADLAALAKEAAIYALRRFVDEKKLNLD 443

Query: 253 ------ECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAV 306
                 E    L V+M D+ +A   + PS+ R V VE+PKV W DIGGL ++K++L++AV
Sbjct: 444 QPTIPAEIIKELKVSMNDFLNALKSIQPSLLREVYVEVPKVNWNDIGGLDNVKQQLREAV 503

Query: 307 EWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVG 366
           EWP++    F++ G++P +G LL GPPG  KT LAKA A  + A+F ++ G E+ S +VG
Sbjct: 504 EWPLRFPELFTKSGVTPPKGILLFGPPGTGKTMLAKAVATESGANFIAVRGPEILSKWVG 563

Query: 367 ESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ 426
           ESE  +R  F++AR AAP++IFFDE D +   RG S+ + +T  ER+++ LL EMDG+  
Sbjct: 564 ESEKAIREIFRKARQAAPTVIFFDEIDSIAPIRGLSTDSGVT--ERIVNQLLAEMDGIVP 621

Query: 427 AKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLR 486
              ++++AATNRP  +D AL+RPGRFD ++YVPPPD  AR EIL+VHT+N+ + +DV L 
Sbjct: 622 LNKVVIIAATNRPDILDPALLRPGRFDRLIYVPPPDKTARFEILKVHTKNVPLAEDVSLE 681

Query: 487 SIAEETELFTGAELEGLCREAGIVALR 513
            IAE+ E +TGA+LE L REA I A+R
Sbjct: 682 DIAEKAEGYTGADLEALVREATINAMR 708

Not yet known, shows ATPase activity.

Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770) (taxid: 330779)

>sp|P23787|TERA_XENLA Transitional endoplasmic reticulum ATPase OS=Xenopus laevis GN=vcp PE=1 SV=3

 Score =  457 bits (1175), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 230/520 (44%), Positives = 335/520 (64%), Gaps = 18/520 (3%)

Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           + IGG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E G
Sbjct: 204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG 263

Query: 79  AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-E 137
           A   +I+   +     GESE  LR+AF +A  +A    P+++FIDE+DA+ P+R+    E
Sbjct: 264 AFFFLINGPEIMSKLAGESESNLRKAFEEAEKNA----PAIIFIDELDAIAPKREKTHGE 319

Query: 138 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE 197
            + RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD EV++ +P + 
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDST 375

Query: 198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA------ 251
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLSDDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435

Query: 252 ---NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 308
               E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGGL D+K++LQ+ V++
Sbjct: 436 TIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQY 495

Query: 309 PIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGES 368
           P++H   F + G++P +G L +GPPGC KT LAKA A+  +A+F S+ G EL +M+ GES
Sbjct: 496 PVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGES 555

Query: 369 EALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
           EA +R  F +AR AAP ++FFDE D +   RGG+        +R+++ +LTEMDG+   K
Sbjct: 556 EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSIKK 615

Query: 429 GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSI 488
            + ++ ATNRP  ID A++RPGR D ++Y+P PD ++R  IL+ + R   V  DVD+  +
Sbjct: 616 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRMAILKANLRKSPVAKDVDVDFL 675

Query: 489 AEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQT 528
           A+ T  F+GA+L  +C+ A  +A+RE I     R R  QT
Sbjct: 676 AKMTNGFSGADLTEICQRACKLAIRESIENEIRRERDRQT 715

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process.

Xenopus laevis (taxid: 8355)

>sp|P54774|CDC48_SOYBN Cell division cycle protein 48 homolog OS=Glycine max GN=CDC48 PE=2 SV=1

 Score =  455 bits (1171), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 224/514 (43%), Positives = 326/514 (63%), Gaps = 18/514 (3%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           +GG R  +  +REL+  PL +    + +G+K P+G+LLYGPPG+GKT + RAV  E GA 
Sbjct: 210 VGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVANETGAF 269

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQD 139
              I+   +     GESE  LR+AF +A  +A    PS++FIDEID++ P+R+    E +
Sbjct: 270 FFCINGPEIMSKLAGESESNLRKAFEEAEKNA----PSIIFIDEIDSIAPKREKTHGEVE 325

Query: 140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEER 199
            RI SQL TLMD  K    S  HV+V+ +TNR ++IDPALRR GRFD E+++ VP    R
Sbjct: 326 RRIVSQLLTLMDGLK----SRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGR 381

Query: 200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA-------- 251
            E+L+++TK + L  +VDLE IA   +GYVGADL ALC EA +  ++   D         
Sbjct: 382 LEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLEDETI 441

Query: 252 -NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPI 310
             E    ++VT E ++ A     PS  R   VE+P V+WEDIGGL ++K++LQ+ V++P+
Sbjct: 442 DAEVLNSMAVTNEHFQTALGTSNPSALRETVVEVPNVSWEDIGGLENVKRELQETVQYPV 501

Query: 311 KHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEA 370
           +H   F + G+SP +G L +GPPGC KT LAKA A+  +A+F S+ G EL +M+ GESEA
Sbjct: 502 EHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEA 561

Query: 371 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGI 430
            +R  F +AR +AP ++FFDE D +  +RG S   +    +R+L+ LLTEMDG+   K +
Sbjct: 562 NVREIFDKARQSAPCVLFFDELDSIATQRGSSVGDAGGAADRVLNQLLTEMDGMSAKKTV 621

Query: 431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAE 490
            ++ ATNRP  ID AL+RPGR D ++Y+P PD ++RH+I +   R   +  +VDLR++A 
Sbjct: 622 FIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEDSRHQIFKACLRKSPIAKNVDLRALAR 681

Query: 491 ETELFTGAELEGLCREAGIVALREDISATAVRNR 524
            T+ F+GA++  +C+ A   A+RE+I     R R
Sbjct: 682 HTQGFSGADITEICQRACKYAIRENIEKDIERER 715

Probably functions in cell division and growth processes.

Glycine max (taxid: 3847)

>sp|O60058|AFG2_SCHPO ATPase family gene 2 protein OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=afg2 PE=3 SV=1

 Score =  455 bits (1170), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 237/538 (44%), Positives = 344/538 (63%), Gaps = 19/538 (3%)

Query: 20  AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA 79
           +IGG +A +  +R+++  P       +   +  PRG+LLYGPPGTGKT ++RAV  E  A
Sbjct: 280 SIGGLQAQIAQIRDIVELPFQNPELFKFFNIMPPRGVLLYGPPGTGKTMVMRAVAAEANA 339

Query: 80  HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRREQ 138
            +  I   SV   ++GE+E  LR+ F  A +H    +PS++FIDEIDAL P+R +   E 
Sbjct: 340 QVFTIDGPSVVGKYLGETESRLRKIFEDARAH----QPSIIFIDEIDALAPKRTEDVSEA 395

Query: 139 DVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEE 198
           + R  + L TL+D       +   VVV+A+TNR ++ID ALRR GR + E+E+ +P    
Sbjct: 396 ESRAVATLLTLLDG----MANAGKVVVIAATNRPNSIDEALRRPGRLEKEIEIGIPDKSA 451

Query: 199 RFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREATMSAVKRS-SDANECAG 256
           R +I+KL    VP + N   LE +A+  + YVGADL A+ REA + A+KR+ S   + +G
Sbjct: 452 RLDIIKLLLSGVPNEINDAQLEDLASRTHAYVGADLAAVVREAALRAIKRTISLQKDTSG 511

Query: 257 VL---SVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHS 313
           +    +V M+D   A S V  S  R   +E P V W DIGG  ++K+KL+++VEWP+ H 
Sbjct: 512 LDIFGAVQMDDLEFALSSVRQSAMREFMMESPNVHWSDIGGQEEVKQKLKESVEWPLTHG 571

Query: 314 TAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLR 373
             FSRLG+ P +G LL+GPPGCSKT  AKA A     +F ++ G EL+  +VGESE  +R
Sbjct: 572 ETFSRLGVRPPKGVLLYGPPGCSKTITAKAIATETGLNFIAVKGPELFDKFVGESERAVR 631

Query: 374 NTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVL 433
             FQ+AR A+PS+IFFDE D + A RG  +S+     +R+++ LL E+DG+E  + +LVL
Sbjct: 632 QVFQKARQASPSVIFFDEIDALTANRGEDNSS-----DRVVAALLNELDGIEALRNVLVL 686

Query: 434 AATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETE 493
           AATNRP  ID ALMRPGR D +LYV PP+ EAR +I+++    MK  +DVDL  IAE+TE
Sbjct: 687 AATNRPDMIDPALMRPGRLDRLLYVGPPNFEARKQIVKIQAEKMKFAEDVDLDLIAEKTE 746

Query: 494 LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKS 551
             +GAE+  LC+EAG++A+ ED+ A  +   HF+T   +L+ A+T++ ++ Y+SF +S
Sbjct: 747 GCSGAEVVALCQEAGLIAMHEDLEAKEICQAHFKTALLALRKAITRDMLEYYASFSES 804

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	611
359484119	605	PREDICTED: cell division control protein	0.963	0.973	0.812	0.0
255580390	1029	Transitional endoplasmic reticulum ATPas	0.949	0.563	0.787	0.0
356502624	606	PREDICTED: cell division control protein	0.972	0.980	0.777	0.0
224138416	571	predicted protein [Populus trichocarpa]	0.864	0.924	0.835	0.0
449435300	614	PREDICTED: cell division control protein	0.977	0.972	0.732	0.0
449478622	614	PREDICTED: LOW QUALITY PROTEIN: cell div	0.977	0.972	0.730	0.0
297814680	601	CDC48B [Arabidopsis lyrata subsp. lyrata	0.942	0.958	0.745	0.0
15227690	603	cell division control protein 48-B [Arab	0.955	0.968	0.746	0.0
357509249	560	Cell division control protein-like prote	0.901	0.983	0.710	0.0
357167908	600	PREDICTED: cell division control protein	0.870	0.886	0.710	0.0

>gi|359484119|ref|XP_002267202.2| PREDICTED: cell division control protein 48 homolog B-like [Vitis vinifera]

 Score =  937 bits (2421), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 481/592 (81%), Positives = 521/592 (88%), Gaps = 3/592 (0%)

Query: 9   SEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTS 68
           S+   +W+AEEAI GN  A+EALRELITFPL YS +AQ LGLKWPRGLLLYGPPGTGKTS
Sbjct: 6   SDGRNEWRAEEAIAGNAQALEALRELITFPLYYSCEAQTLGLKWPRGLLLYGPPGTGKTS 65

Query: 69  LVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL 128
           LVRAVVRECGAHLT ISPH+VH+AH GESE+ LREAFS+ASSHA+SGKPSV+FIDEIDAL
Sbjct: 66  LVRAVVRECGAHLTTISPHTVHRAHAGESERILREAFSEASSHAVSGKPSVIFIDEIDAL 125

Query: 129 CPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAE 188
           CPRR  RREQD+R+ASQLFTLMDSNKP   SVP VVVVASTNRVDAIDPALRRSGRFDAE
Sbjct: 126 CPRRSSRREQDIRLASQLFTLMDSNKPLSASVPQVVVVASTNRVDAIDPALRRSGRFDAE 185

Query: 189 VEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRS 248
           VEVT PT EERF+ILKLYTKK+ LD  VDL+ IA SCNGYVGADLEALCREAT+SAV RS
Sbjct: 186 VEVTTPTEEERFQILKLYTKKLLLDPEVDLQGIAASCNGYVGADLEALCREATLSAV-RS 244

Query: 249 SDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 308
           SDANE  GV  + M+DW+HARS+VGPSITRGVTVEIPKV+WEDIGGL+DLKKKLQQAVEW
Sbjct: 245 SDANEVGGV-HLAMDDWKHARSIVGPSITRGVTVEIPKVSWEDIGGLKDLKKKLQQAVEW 303

Query: 309 PIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGES 368
           PIKHS AF+RLGISP+RG LLHGPPGCSKTTLAKAAAHAA+ASFFSLSGAELYSMYVGE 
Sbjct: 304 PIKHSDAFARLGISPMRGILLHGPPGCSKTTLAKAAAHAAQASFFSLSGAELYSMYVGEG 363

Query: 369 EALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
           E LLRNTFQRARLAAPSIIFFDEADVV AKRGGSSS S +VGERLLSTLLTEMDGLEQAK
Sbjct: 364 EVLLRNTFQRARLAAPSIIFFDEADVVAAKRGGSSSNSTSVGERLLSTLLTEMDGLEQAK 423

Query: 429 GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSI 488
           GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEAR+EIL VHTRNM++G+DVDL  I
Sbjct: 424 GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARYEILCVHTRNMRIGNDVDLMQI 483

Query: 489 AEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSF 548
           AE+TELFTGAELEGLC EAGIVALREDISAT V NRHFQTVK SLKPALT+ EI+SYSSF
Sbjct: 484 AEDTELFTGAELEGLCVEAGIVALREDISATVVSNRHFQTVKASLKPALTQAEINSYSSF 543

Query: 549 MKSQSPKSSGRVESSTSRGSKNKKKKLVSVFSVTSCVVSIAILAAAKYFSTH 600
           MK+ S K S ++ES     +KN    L S   V    +S  +LA AKYF TH
Sbjct: 544 MKNPSSKPSTQLESGIKHEAKNSMNVLGSS-RVRIGGLSFLVLAIAKYFLTH 594

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255580390|ref|XP_002531022.1| Transitional endoplasmic reticulum ATPase, putative [Ricinus communis] gi|223529397|gb|EEF31360.1| Transitional endoplasmic reticulum ATPase, putative [Ricinus communis]

 Score =  932 bits (2409), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 464/589 (78%), Positives = 514/589 (87%), Gaps = 9/589 (1%)

Query: 15  WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVV 74
           W+AEEAI GN+AA+EALRELI FP+LYS +A++LGLKWPRGLLLYGPPGTGKTSLVRAVV
Sbjct: 40  WRAEEAIAGNQAALEALRELILFPILYSHEAKRLGLKWPRGLLLYGPPGTGKTSLVRAVV 99

Query: 75  RECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH 134
           RECGAHL VISPHSVHKA+ GESEK LREAFS+A SH LSGKPSV+FIDEIDALCPRRD 
Sbjct: 100 RECGAHLVVISPHSVHKAYAGESEKILREAFSEAVSHTLSGKPSVIFIDEIDALCPRRDA 159

Query: 135 RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVP 194
           RREQDVR+ASQLF LMD+N  S TS+  VVVVASTNRVDAIDPALRRS RFDAE+EVT P
Sbjct: 160 RREQDVRLASQLFALMDANTCSSTSLAQVVVVASTNRVDAIDPALRRSERFDAEIEVTTP 219

Query: 195 TAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANEC 254
           T EERF+ILKLYTKK+PL+ NVDL+AIA SCNGYVGADLEALCREAT+SA+K SS+A++ 
Sbjct: 220 TEEERFQILKLYTKKLPLEPNVDLQAIAASCNGYVGADLEALCREATVSALK-SSEASQN 278

Query: 255 AGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHST 314
            G   +TMEDW+HARSVVGPSITRGVTVE+PKV WEDIGGL+DLKKKLQQAVEWPIKHS 
Sbjct: 279 TGAFCLTMEDWKHARSVVGPSITRGVTVEVPKVCWEDIGGLKDLKKKLQQAVEWPIKHSA 338

Query: 315 AFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRN 374
           AFSR+GISPVRG LLHGPPGCSKTTLAKAAA+AA+ SFFSLSGAELYSMYVGE EALLRN
Sbjct: 339 AFSRMGISPVRGVLLHGPPGCSKTTLAKAAANAAQTSFFSLSGAELYSMYVGEGEALLRN 398

Query: 375 TFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLA 434
           TFQRARLAAPSIIFFDE DV+ A+RGGSSS S TVGERLLSTLLTEMDGLEQ KGILVLA
Sbjct: 399 TFQRARLAAPSIIFFDEVDVLAARRGGSSSNSTTVGERLLSTLLTEMDGLEQTKGILVLA 458

Query: 435 ATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETEL 494
           ATNRPHAID ALMRPGRFDLVLYVPPPDLEAR+EIL VHTRNMK+G+DVDL+ IAE+TEL
Sbjct: 459 ATNRPHAIDDALMRPGRFDLVLYVPPPDLEARYEILHVHTRNMKIGNDVDLKRIAEDTEL 518

Query: 495 FTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKSQSP 554
           FTGAELEGLCREAGIVALRE+ISAT V NRHFQTVK+SL+PALT   I+ YSSFMK+Q  
Sbjct: 519 FTGAELEGLCREAGIVALRENISATVVCNRHFQTVKESLRPALTTTGIEKYSSFMKTQM- 577

Query: 555 KSSGRVESSTSRGSKNKKKKLVSVFSVTSCVVSIAILAAAKYFSTHANR 603
            SS  +ES+ +  SK K        +V   + S  +    K+FS   N+
Sbjct: 578 TSSNLIESTANSSSKQKH-------NVFGSICSSYLYFTFKHFSDELNQ 619

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356502624|ref|XP_003520118.1| PREDICTED: cell division control protein 48 homolog B-like [Glycine max]

 Score =  919 bits (2375), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 467/601 (77%), Positives = 519/601 (86%), Gaps = 7/601 (1%)

Query: 12  NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVR 71
           N  W+AEEAIGGN  A++ALRELI FPL +S QAQKLGLKWPRGLLLYGPPGTGKTSLVR
Sbjct: 7   NNHWRAEEAIGGNAEALQALRELIIFPLHFSHQAQKLGLKWPRGLLLYGPPGTGKTSLVR 66

Query: 72  AVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPR 131
           AVVRECGAHLTVISPHSVH+AH GESE+ LREAFS+ASSH   GKPSV+FIDEIDALC R
Sbjct: 67  AVVRECGAHLTVISPHSVHRAHAGESERILREAFSEASSHVALGKPSVIFIDEIDALCAR 126

Query: 132 RDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEV 191
           RD +REQDVR+ASQLFTLMDSNKP+  S P VVVVASTNRVDAIDPALRRSGRFDAE+EV
Sbjct: 127 RDSKREQDVRVASQLFTLMDSNKPT-FSTPGVVVVASTNRVDAIDPALRRSGRFDAEIEV 185

Query: 192 TVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA 251
           TVP  ++RF+ILKLYTK +PLD  +DL++IA  CNGYVGADLEALCREATM A+KRSS+ 
Sbjct: 186 TVPNEDDRFQILKLYTKMIPLDPVLDLKSIAALCNGYVGADLEALCREATMYAIKRSSNT 245

Query: 252 NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIK 311
            + A   S+TMEDW+HARSVVGPSITRGVTVEIPKVTWEDIGGL++LKKK+QQAVEWPIK
Sbjct: 246 KD-ASNFSLTMEDWKHARSVVGPSITRGVTVEIPKVTWEDIGGLKELKKKVQQAVEWPIK 304

Query: 312 HSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEAL 371
           HS AFSR+GISPVRG LLHGPPGCSKTTLAKAAAHAA+ASFFSLSGAELYSMYVGE EAL
Sbjct: 305 HSAAFSRMGISPVRGILLHGPPGCSKTTLAKAAAHAAQASFFSLSGAELYSMYVGEGEAL 364

Query: 372 LRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGIL 431
           LR TFQRARLAAPSIIFFDEADVV AKRG SSS S TVGERLLSTLLTE+DGLE+AKGIL
Sbjct: 365 LRKTFQRARLAAPSIIFFDEADVVAAKRGDSSSNSATVGERLLSTLLTEIDGLEEAKGIL 424

Query: 432 VLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEE 491
           VLAATNRP+AIDAALMRPGRFDLVLYVPPPDLEARHEIL VHTR MK G+DVDLR IAE+
Sbjct: 425 VLAATNRPYAIDAALMRPGRFDLVLYVPPPDLEARHEILCVHTRKMKTGNDVDLRRIAED 484

Query: 492 TELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKS 551
           TELFTGAELEGLC+EAGIVALREDISA  V +RHFQ  K SLKPALTK EIDSYSSFMK+
Sbjct: 485 TELFTGAELEGLCKEAGIVALREDISAAVVCDRHFQIAKSSLKPALTKSEIDSYSSFMKT 544

Query: 552 QSPKSSGRVESSTSRGSKNKKKKL----VSVFSVTSCVVSIAILAAAKYFSTHANRTPNE 607
            S    G  E+   +  K+KK +L    +    V SC++  A  AAA+Y+  + ++  ++
Sbjct: 545 SSRALPGHFEAGL-KPDKSKKNRLDPFSLVKIGVVSCLLLAAAAAAAEYYIMYGDQIVHD 603

Query: 608 L 608
           +
Sbjct: 604 I 604

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138416|ref|XP_002326597.1| predicted protein [Populus trichocarpa] gi|222833919|gb|EEE72396.1| predicted protein [Populus trichocarpa]

 Score =  897 bits (2319), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 443/530 (83%), Positives = 486/530 (91%), Gaps = 2/530 (0%)

Query: 12  NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVR 71
           N +WKAEEAIGGN+AA+EALRELITFPLLYS +AQKLGLKWP GLLLYGPPGTGKTSLVR
Sbjct: 33  NNEWKAEEAIGGNKAALEALRELITFPLLYSREAQKLGLKWPTGLLLYGPPGTGKTSLVR 92

Query: 72  AVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPR 131
           AVVRECGAHL VISPH VH+AH GESE+ LREAFS A SHA++GKPSV+FIDEIDALC R
Sbjct: 93  AVVRECGAHLIVISPHFVHRAHAGESERVLREAFSDALSHAVAGKPSVIFIDEIDALCHR 152

Query: 132 RDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEV 191
           RD RREQDVR+ASQLF LMD+NKPS TS   VVV+ASTNRVDAIDPALRRSGRFDAE+EV
Sbjct: 153 RDSRREQDVRVASQLFALMDANKPSSTSSAQVVVIASTNRVDAIDPALRRSGRFDAEIEV 212

Query: 192 TVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA 251
           T PT EER +ILKLYT+K+ LD NV+L AIA SCNGYVGADLEALCREATMSA+  S D 
Sbjct: 213 TTPTEEERLQILKLYTRKLHLDPNVNLHAIAASCNGYVGADLEALCREATMSALN-SLDT 271

Query: 252 NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIK 311
           +E AGV  +TM+DW+HA+SVVGPSITRGVT+EIPKV+WEDIGGL+DLKKKLQQAVEWPIK
Sbjct: 272 SEDAGV-QLTMDDWKHAKSVVGPSITRGVTMEIPKVSWEDIGGLKDLKKKLQQAVEWPIK 330

Query: 312 HSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEAL 371
           HS AF+R+GISP+RG LLHGPPGCSKTTLAKAAA+AA+ASFFSLSGAELYSMYVGE EAL
Sbjct: 331 HSAAFARMGISPIRGVLLHGPPGCSKTTLAKAAANAAQASFFSLSGAELYSMYVGEGEAL 390

Query: 372 LRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGIL 431
           LR+TFQRARLAAPSIIFFDEADVV AKRGG+SS S TVGERLLSTLLTEMDGLEQ+KGIL
Sbjct: 391 LRHTFQRARLAAPSIIFFDEADVVAAKRGGTSSNSTTVGERLLSTLLTEMDGLEQSKGIL 450

Query: 432 VLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEE 491
           VLAATNRP+AIDAALMRPGRFDLVLYVPPPDLEAR+EIL VHTR MK+ +DVDLR IAE+
Sbjct: 451 VLAATNRPYAIDAALMRPGRFDLVLYVPPPDLEARYEILGVHTRKMKISNDVDLRRIAED 510

Query: 492 TELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEE 541
           +ELFTGAELEGLCREAGIVALRE+ISAT V NRHFQ VK+SLKPALT+ E
Sbjct: 511 SELFTGAELEGLCREAGIVALRENISATVVCNRHFQRVKESLKPALTRAE 560

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449435300|ref|XP_004135433.1| PREDICTED: cell division control protein 48 homolog B-like [Cucumis sativus]

 Score =  889 bits (2297), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 438/598 (73%), Positives = 511/598 (85%), Gaps = 1/598 (0%)

Query: 14  KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAV 73
           KW AEEAI GN  A++ALRELI FPLL+S +A+K+GLKWPRGLLLYGPPGTGKTSLVRA+
Sbjct: 18  KWGAEEAIAGNSEALKALRELIVFPLLFSQEAKKIGLKWPRGLLLYGPPGTGKTSLVRAI 77

Query: 74  VRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD 133
           V+E GAHLT ISPHSVH+AH GESEK LREAF++ASS A+SG+PSV+FIDEIDALCP RD
Sbjct: 78  VQESGAHLTTISPHSVHRAHAGESEKVLREAFTKASSLAISGRPSVIFIDEIDALCPPRD 137

Query: 134 HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV 193
            RREQ+VRI +QL  LMDSNK S +  P VVVVASTNRVDA+DPALRRSGRFDAE+EVT 
Sbjct: 138 SRREQNVRITTQLSILMDSNKQSASGRPQVVVVASTNRVDAVDPALRRSGRFDAEIEVTA 197

Query: 194 PTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE 253
           PT +ER++IL+LYT+KV L+  V+L AIA SCNG+VGADLEALCREA M+A++RSS  NE
Sbjct: 198 PTEDERYQILRLYTRKVQLNPEVNLRAIAASCNGFVGADLEALCREAAMAALQRSSGTNE 257

Query: 254 CAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHS 313
            A +L +T EDW+HARS+VGPS+TRGVTVE+P VTW DIGGL+DLKKKLQQ+VEWPIKH+
Sbjct: 258 NA-ILCMTTEDWKHARSIVGPSMTRGVTVEVPNVTWNDIGGLKDLKKKLQQSVEWPIKHA 316

Query: 314 TAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLR 373
            +FS+LGISP RG LL+GPPGCSKTTLAKAAA+AA+ASFFSLSGAE+YSMYVGE EALLR
Sbjct: 317 ASFSKLGISPARGILLYGPPGCSKTTLAKAAANAAQASFFSLSGAEMYSMYVGEGEALLR 376

Query: 374 NTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVL 433
           NTF+RARLAAPSIIFFDEADVV AKRGGSSS + TVGERLLSTLLTEMDGLE+AKGILVL
Sbjct: 377 NTFRRARLAAPSIIFFDEADVVAAKRGGSSSGNTTVGERLLSTLLTEMDGLEEAKGILVL 436

Query: 434 AATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETE 493
           AATNRPHAIDAALMRPGRFDLVLYVPPPDL+AR+EILRVHTR M +G DV+L+ IAE+TE
Sbjct: 437 AATNRPHAIDAALMRPGRFDLVLYVPPPDLDARYEILRVHTRPMTIGSDVNLKKIAEDTE 496

Query: 494 LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKSQS 553
           LFTGAELEGLCREAG+VALREDI+A  V  RHFQTVKD+LKPALT E+I  YS+FMK++S
Sbjct: 497 LFTGAELEGLCREAGMVALREDITANVVCGRHFQTVKDALKPALTLEDIAIYSTFMKTRS 556

Query: 554 PKSSGRVESSTSRGSKNKKKKLVSVFSVTSCVVSIAILAAAKYFSTHANRTPNELVVT 611
              S   + S++   K+++     V  V   ++S   L  AKYF +   +  +EL+ T
Sbjct: 557 ALPSQHADLSSNNKIKSERNLFGPVSLVKLGLISCFFLVLAKYFLSKEYQVEHELMTT 614

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449478622|ref|XP_004155372.1| PREDICTED: LOW QUALITY PROTEIN: cell division control protein 48 homolog B-like [Cucumis sativus]

 Score =  887 bits (2292), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 437/598 (73%), Positives = 511/598 (85%), Gaps = 1/598 (0%)

Query: 14  KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAV 73
           KW+AEEAI GN  A++ALRELI FPLL+S +A+K+GLKWPRGLLLYGPPGTGKTSLVRA+
Sbjct: 18  KWRAEEAIAGNSEALKALRELIVFPLLFSQEAKKIGLKWPRGLLLYGPPGTGKTSLVRAI 77

Query: 74  VRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD 133
           V+E GAHLT ISPHSVH+AH GESEK LREAF++ASS A+SG+PSV+FIDEIDALCP RD
Sbjct: 78  VQESGAHLTTISPHSVHRAHAGESEKVLREAFTKASSLAISGRPSVIFIDEIDALCPPRD 137

Query: 134 HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV 193
            RREQ+VRI +QL  LMDSNK S +  P VVVVASTNRVDA+DPALRRSGRFDAE+EVT 
Sbjct: 138 SRREQNVRITTQLSILMDSNKQSASGRPQVVVVASTNRVDAVDPALRRSGRFDAEIEVTA 197

Query: 194 PTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE 253
           PT +ER++IL+LYT+KV L+  V+L AIA SCNG+VGADLEALCREA M+A++RSS  NE
Sbjct: 198 PTEDERYQILRLYTRKVQLNPEVNLRAIAASCNGFVGADLEALCREAAMAALQRSSGTNE 257

Query: 254 CAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHS 313
            A +L +T EDW+HARS+VGPS+TRGVTVE+P VTW DIGGL+DLKKKLQQ+VEWPIKH+
Sbjct: 258 NA-ILCMTTEDWKHARSIVGPSMTRGVTVEVPNVTWNDIGGLKDLKKKLQQSVEWPIKHA 316

Query: 314 TAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLR 373
            +FS+LGISP RG LL+GPPGCSKTTLAKAAA+AA+ASFFSLSGAE+YSMYVGE EALLR
Sbjct: 317 ASFSKLGISPARGILLYGPPGCSKTTLAKAAANAAQASFFSLSGAEMYSMYVGEGEALLR 376

Query: 374 NTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVL 433
           NTF+RARLAAPSII FDEADVV AKRGGSSS + TVGERLLSTLLTEMDGLE+AKGILVL
Sbjct: 377 NTFRRARLAAPSIIXFDEADVVAAKRGGSSSGNTTVGERLLSTLLTEMDGLEEAKGILVL 436

Query: 434 AATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETE 493
           AATNRPHAIDAALMRPGRFDLVLYVPPPDL+AR+EILRVHTR M +G DV+L+ IAE+TE
Sbjct: 437 AATNRPHAIDAALMRPGRFDLVLYVPPPDLDARYEILRVHTRPMTIGSDVNLKKIAEDTE 496

Query: 494 LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKSQS 553
           LFTGAELEGLCREAG+VALREDI+A  V  RHFQTVKD+LKPALT E+I  YS+FMK++S
Sbjct: 497 LFTGAELEGLCREAGMVALREDITANVVCGRHFQTVKDALKPALTLEDIAIYSTFMKTRS 556

Query: 554 PKSSGRVESSTSRGSKNKKKKLVSVFSVTSCVVSIAILAAAKYFSTHANRTPNELVVT 611
              S   + S++   K+++     V  V   ++S   L  AKYF +   +  +EL+ T
Sbjct: 557 ALPSQHADLSSNNKIKSERNLFGPVSLVKLGLISCFFLVLAKYFLSKEYQVEHELMTT 614

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297814680|ref|XP_002875223.1| CDC48B [Arabidopsis lyrata subsp. lyrata] gi|297321061|gb|EFH51482.1| CDC48B [Arabidopsis lyrata subsp. lyrata]

 Score =  872 bits (2254), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 440/590 (74%), Positives = 501/590 (84%), Gaps = 14/590 (2%)

Query: 12  NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVR 71
           +EKW+AE  IGGN  A++ALRELI FP  Y  +A+ LGLKWPRGLLLYGPPGTGKTSLVR
Sbjct: 14  DEKWRAEAEIGGNERALQALRELIIFPFRYPLEARTLGLKWPRGLLLYGPPGTGKTSLVR 73

Query: 72  AVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPR 131
           AVV+EC AHL V+SPHSVH+AH GESEK LREAF++ASSHA+S KPSV+FIDEID LCPR
Sbjct: 74  AVVQECDAHLIVLSPHSVHRAHAGESEKVLREAFAEASSHAVSDKPSVIFIDEIDVLCPR 133

Query: 132 RDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEV 191
           RD RREQDVRIASQLFTLMDSNKPS +S P VVVVASTNRVDAIDPA+RR+GRFDA VEV
Sbjct: 134 RDARREQDVRIASQLFTLMDSNKPS-SSAPKVVVVASTNRVDAIDPAIRRAGRFDALVEV 192

Query: 192 TVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA 251
           + P  ++R +IL+LYTKKV LD++VDL+AIA SCNGYVGADLEALCREAT+SA KRSSD 
Sbjct: 193 STPNEDDRLKILQLYTKKVNLDSSVDLQAIAISCNGYVGADLEALCREATISASKRSSDP 252

Query: 252 NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIK 311
                 L +  +D++ A+SVVGPSI RG+TVEIPKVTW+D+GGL+DLKKKLQQAVEWPIK
Sbjct: 253 ------LILISQDFKIAKSVVGPSINRGITVEIPKVTWDDVGGLKDLKKKLQQAVEWPIK 306

Query: 312 HSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEAL 371
           HS AF ++GISP+RG LLHGPPGCSKTTLAKAAA+AA+ASFFSLS AEL+SMYVGE EAL
Sbjct: 307 HSAAFVKMGISPMRGILLHGPPGCSKTTLAKAAANAAQASFFSLSCAELFSMYVGEGEAL 366

Query: 372 LRNTFQRARLAAPSIIFFDEADVVGAKRGG-SSSTSITVGERLLSTLLTEMDGLEQAKGI 430
           LRNTFQRARLA+PSIIFFDEADVV  KRG  SSS S TVGERLLSTLLTEMDGLE+AKGI
Sbjct: 367 LRNTFQRARLASPSIIFFDEADVVACKRGDESSSNSSTVGERLLSTLLTEMDGLEEAKGI 426

Query: 431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAE 490
           LVLAATNRP+AIDAALMRPGRFDLVLYVPPPDLEAR EIL+VHTRNM++GDDVDLR IAE
Sbjct: 427 LVLAATNRPYAIDAALMRPGRFDLVLYVPPPDLEARFEILQVHTRNMRLGDDVDLRKIAE 486

Query: 491 ETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMK 550
           ET+LFTGAELEGLCRE+G V+LRE+I ATAV NRHFQT K SLKPALT EE+++YSSF K
Sbjct: 487 ETDLFTGAELEGLCRESGTVSLRENIEATAVFNRHFQTAKSSLKPALTIEEVETYSSFRK 546

Query: 551 SQSPKSSGRVESSTSRGSKNKKKKLVSVFSVTSCVVSIAILAAAKYFSTH 600
           ++      R +S     +K K    V  FS    V+S+ +LA   Y+  H
Sbjct: 547 AK------RSDSKPIPINKKKSTSTVFGFSWQFGVLSLILLATGNYYFNH 590

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15227690|ref|NP_178463.1| cell division control protein 48-B [Arabidopsis thaliana] gi|28201774|sp|Q9ZPR1.1|CD48B_ARATH RecName: Full=Cell division control protein 48 homolog B; Short=AtCDC48b gi|4406773|gb|AAD20084.1| putative AAA-type ATPase [Arabidopsis thaliana] gi|17064734|gb|AAL32521.1| putative AAA-type ATPase [Arabidopsis thaliana] gi|30725416|gb|AAP37730.1| At2g03670 [Arabidopsis thaliana] gi|330250640|gb|AEC05734.1| cell division control protein 48-B [Arabidopsis thaliana]

 Score =  871 bits (2251), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 448/600 (74%), Positives = 508/600 (84%), Gaps = 16/600 (2%)

Query: 12  NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVR 71
           NEKW+AE  IGGN  A++ALRELI FP  Y  +A+ LGLKWPRGLLLYGPPGTGKTSLVR
Sbjct: 15  NEKWRAEAEIGGNERALQALRELIIFPFRYPLEARTLGLKWPRGLLLYGPPGTGKTSLVR 74

Query: 72  AVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPR 131
           AVV+EC AHL V+SPHSVH+AH GESEK LREAF++ASSHA+S KPSV+FIDEID LCPR
Sbjct: 75  AVVQECDAHLIVLSPHSVHRAHAGESEKVLREAFAEASSHAVSDKPSVIFIDEIDVLCPR 134

Query: 132 RDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEV 191
           RD RREQDVRIASQLFTLMDSNKPS +S P VVVVASTNRVDAIDPALRR+GRFDA VEV
Sbjct: 135 RDARREQDVRIASQLFTLMDSNKPS-SSAPRVVVVASTNRVDAIDPALRRAGRFDALVEV 193

Query: 192 TVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA 251
           + P  E+R +IL+LYTKKV LD +VDL+AIA SCNGYVGADLEALCREAT+SA KRSSD+
Sbjct: 194 STPNEEDRLKILQLYTKKVNLDPSVDLQAIAISCNGYVGADLEALCREATISASKRSSDS 253

Query: 252 NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIK 311
                 L +T +D++ A+SVVGPSI RG+TVEIPKVTW+D+GGL+DLKKKLQQAVEWPIK
Sbjct: 254 ------LILTSQDFKIAKSVVGPSINRGITVEIPKVTWDDVGGLKDLKKKLQQAVEWPIK 307

Query: 312 HSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEAL 371
           HS AF ++GISP+RG LLHGPPGCSKTTLAKAAA+AA+ASFFSLS AEL+SMYVGE EAL
Sbjct: 308 HSAAFVKMGISPMRGILLHGPPGCSKTTLAKAAANAAQASFFSLSCAELFSMYVGEGEAL 367

Query: 372 LRNTFQRARLAAPSIIFFDEADVVGAKRGG-SSSTSITVGERLLSTLLTEMDGLEQAKGI 430
           LRNTFQRARLA+PSIIFFDEADVV  KRG  SSS S TVGERLLSTLLTEMDGLE+AKGI
Sbjct: 368 LRNTFQRARLASPSIIFFDEADVVACKRGDESSSNSSTVGERLLSTLLTEMDGLEEAKGI 427

Query: 431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAE 490
           LVLAATNRP+AIDAALMRPGRFDLVLYVPPPDLEAR EIL+VHTRNM +GDDVDLR IAE
Sbjct: 428 LVLAATNRPYAIDAALMRPGRFDLVLYVPPPDLEARFEILQVHTRNMTLGDDVDLRKIAE 487

Query: 491 ETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMK 550
           ET+LFTGAELEGLCRE+G V+LRE+I+ATAV NRHFQT K SLKPALT EE+++YSSF  
Sbjct: 488 ETDLFTGAELEGLCRESGTVSLRENIAATAVFNRHFQTAKSSLKPALTIEEVETYSSFR- 546

Query: 551 SQSPKSSGRVESSTSRGSKNKKKKLVSVFSVTSCVVSIAILAAAKYFSTHANRTPNELVV 610
               K++ R +S     +K K    V  FS    V+S+ +LA   Y+  H   T +EL+V
Sbjct: 547 ----KAAKRSDSKPIPINKKKATSTVFGFSWQLGVLSLLLLATGNYYFNH---TKHELLV 599

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357509249|ref|XP_003624913.1| Cell division control protein-like protein [Medicago truncatula] gi|124361206|gb|ABN09178.1| AAA ATPase, central region [Medicago truncatula] gi|355499928|gb|AES81131.1| Cell division control protein-like protein [Medicago truncatula]

 Score =  795 bits (2052), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 393/553 (71%), Positives = 461/553 (83%), Gaps = 2/553 (0%)

Query: 9   SEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTS 68
           S  N   KAE+ +GGN  A++ LRELIT+P L++S+A++LGLK+PRGLLLYGPPGTGKTS
Sbjct: 10  SSTNGHHKAEDVVGGNAKAIQILRELITYPRLFTSEAKQLGLKFPRGLLLYGPPGTGKTS 69

Query: 69  LVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL 128
           LVRA+V ECGA+LT+ISP++V+ A  GESE+ LREAFS+ASSHA  GK SV+FIDEID L
Sbjct: 70  LVRAIVEECGANLTIISPNTVNSALAGESERNLREAFSEASSHAALGKSSVIFIDEIDGL 129

Query: 129 CPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAE 188
           CPRRD  RE DVRIASQL TLMDSNK + +S P VVVVASTNRVDAIDPALRR GRFD E
Sbjct: 130 CPRRDSIRELDVRIASQLCTLMDSNKAT-SSNPGVVVVASTNRVDAIDPALRRYGRFDIE 188

Query: 189 VEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRS 248
            EVTVP  EER +IL+LYT+K+P D+  DLE +A SCNGYVGADL  LC EA  SA++RS
Sbjct: 189 TEVTVPNEEERLQILELYTRKIPRDSQ-DLEYVAASCNGYVGADLRDLCLEAVKSAIERS 247

Query: 249 SDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 308
            +AN+     S+TMEDW++ARS+V PSITRG+TVEIPKVTW+DIGGL+D+K KL+QA+EW
Sbjct: 248 DNANKDVNDSSLTMEDWKNARSLVQPSITRGITVEIPKVTWKDIGGLKDVKTKLEQAIEW 307

Query: 309 PIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGES 368
           P+KH  AFSRLGI+P+RG LLHGPPGCSKTTLAKAAA+AA   FFSLS AEL+SMYVG+ 
Sbjct: 308 PMKHPDAFSRLGITPIRGILLHGPPGCSKTTLAKAAANAANVPFFSLSCAELFSMYVGDG 367

Query: 369 EALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
           E LLR  FQ+ARLA  SIIFFDEAD+V  KRG SSS    VGERLLSTLLTEMDGLE+AK
Sbjct: 368 EGLLREIFQKARLAGKSIIFFDEADIVAGKRGDSSSGGAVVGERLLSTLLTEMDGLEEAK 427

Query: 429 GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSI 488
           G+LVLAATNRP+AIDAALMRPGRFDL+LYVPPPDLE R EIL+VHTR M +G DVDLR +
Sbjct: 428 GVLVLAATNRPYAIDAALMRPGRFDLILYVPPPDLEGRFEILKVHTRGMNLGSDVDLRKL 487

Query: 489 AEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSF 548
           AE+TELFTGAEL+GLC+E GIVALRE+I A+ V + HF+T K+SLKPALT EEI SYSSF
Sbjct: 488 AEDTELFTGAELQGLCKEVGIVALRENIDASVVYDHHFKTAKNSLKPALTAEEIVSYSSF 547

Query: 549 MKSQSPKSSGRVE 561
            ++ S   S  +E
Sbjct: 548 KRTSSRALSKEIE 560

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357167908|ref|XP_003581390.1| PREDICTED: cell division control protein 48 homolog B-like [Brachypodium distachyon]

 Score =  784 bits (2024), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 380/535 (71%), Positives = 453/535 (84%), Gaps = 3/535 (0%)

Query: 15  WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVV 74
           W+AEEA+ GNR A++ALREL+ +P +Y+ Q++ LGLKWPRGLLLYGPPGTGKTSLV+A+V
Sbjct: 56  WRAEEAVAGNRMALDALRELVVYPFIYARQSRLLGLKWPRGLLLYGPPGTGKTSLVQAMV 115

Query: 75  RECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH 134
           REC AHLT+I+P+SVHKAH GE EK LREAFS+A S A  G+P+++FIDE+DA+CPRRD+
Sbjct: 116 RECNAHLTMINPYSVHKAHAGEGEKFLREAFSEAYSQASQGRPAIIFIDELDAICPRRDN 175

Query: 135 RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVP 194
           +REQ+ RI  QL TLMD NK +   +PHVVVVASTNRVDAIDPALRR GRFD+E+EVTVP
Sbjct: 176 KREQESRIVGQLLTLMDGNKKT-VKLPHVVVVASTNRVDAIDPALRRPGRFDSEIEVTVP 234

Query: 195 TAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANEC 254
           + EER +ILKLYTK + LD+ VDL+ IA SCNGYVGADL+ALCREA + A +R S+++E 
Sbjct: 235 SLEERLQILKLYTKNLHLDSTVDLQTIAASCNGYVGADLQALCREAALLAYRRLSNSSED 294

Query: 255 AGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHST 314
             V ++ M DW  ARS V  S+TRGVT E+  V W+DIGGL+DLKKKLQQAVEWPIKH+ 
Sbjct: 295 EKVHTLIMADWESARSQVRASMTRGVTKEVSTVLWDDIGGLQDLKKKLQQAVEWPIKHAA 354

Query: 315 AFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRN 374
           AF+RLGISPVRG LLHGPPGCSKTTLAKAAAHAA+ASFFSLSGAELYS YVGE EALLR 
Sbjct: 355 AFARLGISPVRGVLLHGPPGCSKTTLAKAAAHAAQASFFSLSGAELYSKYVGEGEALLRR 414

Query: 375 TFQRARLAAPSIIFFDEADVVGAKRG--GSSSTSITVGERLLSTLLTEMDGLEQAKGILV 432
           TFQ ARLAAPSI+FFDEAD +  KR   G +S ++TVGERLLSTLLTEMDGLE A GI+V
Sbjct: 415 TFQSARLAAPSILFFDEADAIAPKRTGPGGNSGNVTVGERLLSTLLTEMDGLELATGIIV 474

Query: 433 LAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEET 492
           LAATNRP AIDAAL+RPGRFD+VLYVPPPD++ RHEILR+HTR MK+G+DVDL  IAE T
Sbjct: 475 LAATNRPKAIDAALLRPGRFDMVLYVPPPDVQGRHEILRIHTRKMKLGEDVDLVKIAECT 534

Query: 493 ELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSS 547
           ELFTGA+LEGLCREAG+ ALRED+SA ++   HF+  + SL+P+LTK EID Y++
Sbjct: 535 ELFTGADLEGLCREAGMAALREDLSANSIHKAHFEAARRSLRPSLTKAEIDEYAA 589

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	611
TAIR|locus:2044209	603	CDC48B "cell division cycle 48	0.955	0.968	0.688	1.9e-209
UNIPROTKB|E2RC37	893	SPATA5 "Uncharacterized protei	0.855	0.585	0.429	6.6e-113
UNIPROTKB|Q8NB90	893	SPATA5 "Spermatogenesis-associ	0.852	0.583	0.427	1.8e-112
MGI|MGI:1927170	893	Spata5 "spermatogenesis associ	0.852	0.583	0.427	9.7e-112
ZFIN|ZDB-GENE-060929-204	748	spata5l1 "spermatogenesis asso	0.641	0.524	0.441	1.9e-108
UNIPROTKB|F1SN45	755	SPATA5L1 "Uncharacterized prot	0.648	0.524	0.422	3.9e-108
UNIPROTKB|F6UUI0	789	SPATA5L1 "Uncharacterized prot	0.649	0.503	0.430	5.7e-107
UNIPROTKB|Q9BVQ7	753	SPATA5L1 "Spermatogenesis-asso	0.648	0.525	0.429	1.5e-106
UNIPROTKB|G3X757	806	VCP "Transitional endoplasmic	0.818	0.620	0.420	4e-106
UNIPROTKB|Q3ZBT1	806	VCP "Transitional endoplasmic	0.818	0.620	0.420	4e-106

TAIR|locus:2044209 CDC48B "cell division cycle 48B" [Arabidopsis thaliana (taxid:3702)]

 Score = 2025 (717.9 bits), Expect = 1.9e-209, P = 1.9e-209
 Identities = 413/600 (68%), Positives = 465/600 (77%)

Query:    12 NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVR 71
             NEKW+AE  IGGN  A++ALRELI FP  Y  +A+ LGLKWPRGLLLYGPPGTGKTSLVR
Sbjct:    15 NEKWRAEAEIGGNERALQALRELIIFPFRYPLEARTLGLKWPRGLLLYGPPGTGKTSLVR 74

Query:    72 AVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPR 131
             AVV+EC AHL V+SPHSVH+AH GESEK LREAF++ASSHA+S KPSV+FIDEID LCPR
Sbjct:    75 AVVQECDAHLIVLSPHSVHRAHAGESEKVLREAFAEASSHAVSDKPSVIFIDEIDVLCPR 134

Query:   132 RDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXX 191
             RD RREQDVRIASQLFTLMDSNKPS +S P VVVVASTNRVDAIDPALRR+GRFD     
Sbjct:   135 RDARREQDVRIASQLFTLMDSNKPS-SSAPRVVVVASTNRVDAIDPALRRAGRFDALVEV 193

Query:   192 XXXXXXXRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA 251
                    R +IL+LYTKKV LD +VDL+AIA SCNGYVGADLEALCREAT+SA KRSSD+
Sbjct:   194 STPNEEDRLKILQLYTKKVNLDPSVDLQAIAISCNGYVGADLEALCREATISASKRSSDS 253

Query:   252 NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIK 311
                   L +T +D++ A+SVVGPSI RG+TVEIPKVTW+D+GGL+DLKKKLQQAVEWPIK
Sbjct:   254 ------LILTSQDFKIAKSVVGPSINRGITVEIPKVTWDDVGGLKDLKKKLQQAVEWPIK 307

Query:   312 HSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEAL 371
             HS AF ++GISP+RG LLHGPPGC                      AEL+SMYVGE EAL
Sbjct:   308 HSAAFVKMGISPMRGILLHGPPGCSKTTLAKAAANAAQASFFSLSCAELFSMYVGEGEAL 367

Query:   372 LRNTFQRARLAAPSIIFFDEADVVGAKRGG-SSSTSITVGERLLSTLLTEMDGLEQAKGI 430
             LRNTFQRARLA+PSIIFFDEADVV  KRG  SSS S TVGERLLSTLLTEMDGLE+AKGI
Sbjct:   368 LRNTFQRARLASPSIIFFDEADVVACKRGDESSSNSSTVGERLLSTLLTEMDGLEEAKGI 427

Query:   431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAE 490
             LVLAATNRP+AIDAALMRPGRFDLVLYVPPPDLEAR EIL+VHTRNM +GDDVDLR IAE
Sbjct:   428 LVLAATNRPYAIDAALMRPGRFDLVLYVPPPDLEARFEILQVHTRNMTLGDDVDLRKIAE 487

Query:   491 ETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDXXXXXXX 550
             ET+LFTGAELEGLCRE+G V+LRE+I+ATAV NRHFQT K SLKPALT EE++       
Sbjct:   488 ETDLFTGAELEGLCRESGTVSLRENIAATAVFNRHFQTAKSSLKPALTIEEVETYSSFRK 547

Query:   551 XXXXXXXGRVESSTSRGSKNKKKKLXXXXXXXXXXXXIAILAAAKYFSTHANRTPNELVV 610
                     R +S     +K K                + +LA   Y+  H   T +EL+V
Sbjct:   548 AAK-----RSDSKPIPINKKKATSTVFGFSWQLGVLSLLLLATGNYYFNH---TKHELLV 599

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

UNIPROTKB|E2RC37 SPATA5 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 1114 (397.2 bits), Expect = 6.6e-113, P = 6.6e-113
 Identities = 232/540 (42%), Positives = 337/540 (62%)

Query:    10 EHNEKWKAE-EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTS 68
             E + ++K   + IGG  + ++A+RE+I  PL      +  G+  PRG+LLYGPPGTGKT 
Sbjct:   343 EEDNQFKVTYDMIGGLSSQLKAIREIIELPLKQPELFKSYGIPPPRGVLLYGPPGTGKTM 402

Query:    69 LVRAVVRECGAHLTVIS-PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA 127
             + RAV  E GA+++VI+ P  + K + GE+E  LR+ F++A+       PS++FIDE+DA
Sbjct:   403 IARAVANEVGAYVSVINGPEIISKFY-GETEARLRQIFAEATLR----HPSIIFIDELDA 457

Query:   128 LCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFD 186
             LCP+R+  + E + R+ + L TLMD    S+ S   V+V+ +TNR  A+D ALRR GRFD
Sbjct:   458 LCPKREGAQNEVEKRVVASLLTLMDGIG-SEGSEGQVLVLGATNRPHALDAALRRPGRFD 516

Query:   187 XXXXXXXXXXXXRFEILKLYTKKVP-LDANVDLEAIATSCNGYVGADLEALCREATMSAV 245
                         R +IL+   ++VP L   V+L  +A S +GYVGADL+ALC EA + A+
Sbjct:   517 KEIEIGVPNAADRLDILQKLLQRVPHLLTEVELLQLANSAHGYVGADLKALCNEAGLYAL 576

Query:   246 KR--SSDAN----ECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLK 299
             +R  +   N    + AG++ +T+ D+    + + PS  R V +++P V+W DIGGL ++K
Sbjct:   577 RRVLNKQPNLSDSKMAGLVKITLNDFLQGMNDIRPSAMREVAIDVPNVSWSDIGGLENIK 636

Query:   300 KKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAE 359
              KL+QAVEWP+KH  +F R+GI P +G LL+GPPGC                     G E
Sbjct:   637 LKLKQAVEWPLKHPESFIRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPE 696

Query:   360 LYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLT 419
             L + YVGESE  +R  F++AR  +PSIIFFDE D +  +RG SS     V +R+L+ LLT
Sbjct:   697 LMNKYVGESERAVREIFRKARAVSPSIIFFDELDALAIERGSSSGAG-NVADRVLAQLLT 755

Query:   420 EMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKV 479
             EMDG+EQ K + +LAATNRP  ID ALMRPGR D ++YVP PD   R EIL +   +M +
Sbjct:   756 EMDGIEQLKDVTILAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPI 815

Query:   480 GDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTK 539
              +DV+L  +  +T+ ++GAE+  +CREA ++AL EDI A ++  RHF     ++ P ++K
Sbjct:   816 SNDVNLDELIFQTDTYSGAEIIAVCREAALLALEEDIQANSITRRHFTRALSTVTPRISK 875

GO:0005524 "ATP binding" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

UNIPROTKB|Q8NB90 SPATA5 "Spermatogenesis-associated protein 5" [Homo sapiens (taxid:9606)]

 Score = 1110 (395.8 bits), Expect = 1.8e-112, P = 1.8e-112
 Identities = 230/538 (42%), Positives = 332/538 (61%)

Query:    10 EHNEKWKAE-EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTS 68
             E + ++K   + IGG  + ++A+RE+I  PL      +  G+  PRG+LLYGPPGTGKT 
Sbjct:   343 EQDNQFKVTYDMIGGLSSQLKAIREIIELPLKQPELFKSYGIPAPRGVLLYGPPGTGKTM 402

Query:    69 LVRAVVRECGAHLTVIS-PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA 127
             + RAV  E GA+++VI+ P  + K + GE+E  LR+ F++A+       PS++FIDE+DA
Sbjct:   403 IARAVANEVGAYVSVINGPEIISKFY-GETEAKLRQIFAEATLR----HPSIIFIDELDA 457

Query:   128 LCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFD 186
             LCP+R+  + E + R+ + L TLMD    S+ S   V+V+ +TNR  A+D ALRR GRFD
Sbjct:   458 LCPKREGAQNEVEKRVVASLLTLMDGIG-SEVSEGQVLVLGATNRPHALDAALRRPGRFD 516

Query:   187 XXXXXXXXXXXXRFEILKLYTKKVP-LDANVDLEAIATSCNGYVGADLEALCREATMSAV 245
                         R +IL+   ++VP L    +L  +A S +GYVGADL+ LC EA + A+
Sbjct:   517 KEIEIGVPNAQDRLDILQKLLRRVPHLLTEAELLQLANSAHGYVGADLKVLCNEAGLCAL 576

Query:   246 KR--SSDAN----ECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLK 299
             +R      N    + AG++ +T++D+  A + + PS  R + +++P V+W DIGGL  +K
Sbjct:   577 RRILKKQPNLPDVKVAGLVKITLKDFLQAMNDIRPSAMREIAIDVPNVSWSDIGGLESIK 636

Query:   300 KKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAE 359
              KL+QAVEWP+KH  +F R+GI P +G LL+GPPGC                     G E
Sbjct:   637 LKLEQAVEWPLKHPESFIRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPE 696

Query:   360 LYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLT 419
             L + YVGESE  +R TF++AR  APSIIFFDE D +  +RG S      V +R+L+ LLT
Sbjct:   697 LMNKYVGESERAVRETFRKARAVAPSIIFFDELDALAVERGSSLGAG-NVADRVLAQLLT 755

Query:   420 EMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKV 479
             EMDG+EQ K + +LAATNRP  ID ALMRPGR D ++YVP PD   R EI ++   +M V
Sbjct:   756 EMDGIEQLKDVTILAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREIFKLQFHSMPV 815

Query:   480 GDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPAL 537
              ++VDL  +  +T+ ++GAE+  +CREA ++AL EDI A  +  RHF     ++ P +
Sbjct:   816 SNEVDLDELILQTDAYSGAEIVAVCREAALLALEEDIQANLIMKRHFTQALSTVTPRI 873

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0007283 "spermatogenesis" evidence=IEA

GO:0030154 "cell differentiation" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

MGI|MGI:1927170 Spata5 "spermatogenesis associated 5" [Mus musculus (taxid:10090)]

 Score = 1103 (393.3 bits), Expect = 9.7e-112, P = 9.7e-112
 Identities = 230/538 (42%), Positives = 332/538 (61%)

Query:    10 EHNEKWKAE-EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTS 68
             E + ++K   + IGG  + ++A+RE+I  PL      +  G+  PRGLLLYGPPGTGKT 
Sbjct:   343 EQDSQFKVTYDMIGGLNSQLKAIREIIELPLKQPELFKSYGIPAPRGLLLYGPPGTGKTM 402

Query:    69 LVRAVVRECGAHLTVIS-PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA 127
             + RAV  E GA+++VI+ P  + K + GE+E  LR+ F++A+       PS++FIDE+DA
Sbjct:   403 IARAVANEVGAYVSVINGPEIISKFY-GETEARLRQIFAEATLR----HPSIIFIDELDA 457

Query:   128 LCPRRDHRR-EQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFD 186
             LCP+R+  + E + R+ + L TLMD    S+ S   V+V+ +TNR  A+D ALRR GRFD
Sbjct:   458 LCPKREGAQSEVEKRVVASLLTLMDGIG-SEGSEGRVLVLGATNRPQALDAALRRPGRFD 516

Query:   187 XXXXXXXXXXXXRFEILKLYTKKVP-LDANVDLEAIATSCNGYVGADLEALCREATMSAV 245
                         R +IL+   ++VP L    +L  +A + +GYVGADL+ALC EA + A+
Sbjct:   517 KEIEIGIPNAQDRLDILQKLLRRVPHLLTKAELLRLANNAHGYVGADLKALCNEAGLHAL 576

Query:   246 KR--SSDAN----ECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLK 299
             +R      N    + AG++ +T+ D+    + + PS  R V +++P V+W DIGGL ++K
Sbjct:   577 RRVLRKQPNLPDSKVAGMVKITLNDFLQGMNDIRPSAMREVAIDVPNVSWSDIGGLENIK 636

Query:   300 KKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAE 359
              KL+QAVEWP+KH  +F+R+GI P +G LL+GPPGC                     G E
Sbjct:   637 LKLKQAVEWPLKHPKSFNRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPE 696

Query:   360 LYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLT 419
             L + YVGESE  +R  F++AR  APSIIFFDE D +  +RG SS     V +R+L+ LLT
Sbjct:   697 LMNKYVGESERAVREIFRKARAVAPSIIFFDELDALAVERGSSSGAG-NVADRVLAQLLT 755

Query:   420 EMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKV 479
             EMDG+EQ K + VLAATNRP  ID ALMRPGR D ++YVP PD   R EIL +   +M +
Sbjct:   756 EMDGIEQLKNVTVLAATNRPDRIDKALMRPGRIDRIIYVPLPDAATRREILNLQFHSMPI 815

Query:   480 GDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPAL 537
              ++VDL  +  +T+ ++GAE+  +C+EA ++AL E+I A  +  RHF      + P +
Sbjct:   816 SNEVDLDELVLQTDTYSGAEIIAVCKEAALLALEENIKADCIMKRHFTQALSIVTPRI 873

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0007283 "spermatogenesis" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0030154 "cell differentiation" evidence=IEA

ZFIN|ZDB-GENE-060929-204 spata5l1 "spermatogenesis associated 5-like 1" [Danio rerio (taxid:7955)]

 Score = 779 (279.3 bits), Expect = 1.9e-108, Sum P(2) = 1.9e-108
 Identities = 181/410 (44%), Positives = 239/410 (58%)

Query:    21 IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
             +GG      +L+E+ITFPL Y    ++LGL  PRGLLL GPPG GKT LVR V ++ GA 
Sbjct:   189 LGGMEDVFASLKEMITFPLRYPGSLRQLGLSCPRGLLLIGPPGVGKTLLVRCVAKDIGAT 248

Query:    81 LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQ-D 139
             L  ++   V  +  GESE+ LR  F QA   A  G P V+ IDEID+LCPRR       +
Sbjct:   249 LVTVNGPEVTGSRPGESEENLRRVFEQARDAADDG-PCVLLIDEIDSLCPRRTGSSSAPE 307

Query:   140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
              R+ +QL TLMD+      S    V++ +TN+ D++DPALRR GRFD            R
Sbjct:   308 NRLVAQLLTLMDAIG----SHEGFVIIGATNQPDSLDPALRRPGRFDREVIIGVPSLLQR 363

Query:   200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSS-DANECAGVL 258
               ILK   +++PL  +VDL  +A    GYVGADL AL REA + A++ S   A+E     
Sbjct:   364 RSILKCVCREMPLSPDVDLNTLAEMTCGYVGADLSALSREAALQAMRHSQMGASE----- 418

Query:   259 SVTMEDWRHARSVVGPSITR---GVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTA 315
              V+M+ +  A   V PS  R   G T +   + WE IGGL D+K KL+Q++EWP++   A
Sbjct:   419 PVSMQHFMQALRHVQPSCLRSSIGAT-DFKPIGWEQIGGLEDVKLKLKQSIEWPMRFPEA 477

Query:   316 FSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNT 375
             F RLG+S  RG LL+GPPGC                     GAEL+S YVG+SE  L   
Sbjct:   478 FVRLGVSRPRGVLLYGPPGCAKTTLVKAAASSSHCSFFSLSGAELFSPYVGDSEKTLAQL 537

Query:   376 FQRARLAAPSIIFFDEAD-VVGAKRGGSSSTSITVGERLLSTLLTEMDGL 424
             F +AR  APSI+F DE D +VG++  GSSS S +V  ++LS LLTE+DG+
Sbjct:   538 FAQARACAPSIVFLDEVDSMVGSREDGSSS-SHSVQSQVLSVLLTELDGV 586

GO:0005524 "ATP binding" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|F1SN45 SPATA5L1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 793 (284.2 bits), Expect = 3.9e-108, Sum P(2) = 3.9e-108
 Identities = 174/412 (42%), Positives = 240/412 (58%)

Query:    18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC 77
             E  +GG   A ++LREL+  PLLY      LGL  PRG+LL GPPG GKT LVRAV RE 
Sbjct:   199 EVPLGGLAEAADSLRELLRLPLLYPRSFASLGLAVPRGVLLAGPPGVGKTQLVRAVAREA 258

Query:    78 GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGK-PSVVFIDEIDALCPRRD--H 134
             GA L  +S  ++  A  GE+E+ +R  F +A    L+G+ P+++F+DE+DALCPRR   H
Sbjct:   259 GAELLAVSAPALQGARPGETEENVRRVFQRAQE--LAGRRPTLLFLDEVDALCPRRGGPH 316

Query:   135 RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXX 194
             +  +  R+ +Q+ TL+D     +     VVVV STNR DA+DPALRR GRFD        
Sbjct:   317 QAPES-RVVAQVLTLLDGISGDR----EVVVVGSTNRPDALDPALRRPGRFDREVVIGTP 371

Query:   195 XXXXRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANEC 254
                 R  IL++ T K+P+ + VDL  +A    GYVGADL ALCREA M A+  S    + 
Sbjct:   372 TLGQRKAILQVITSKMPISSQVDLSLLAEMTVGYVGADLTALCREAAMHALLHSGKNQDN 431

Query:   255 AGVLSVTMEDWRHARSVVGPSITRGVT--VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKH 312
               +  +   D+  A   + PS  R V   +++  +TWE IGGL D K+KL+Q++EWP+K 
Sbjct:   432 PLIDEI---DFLEAFKKIQPSSFRSVIGLMDVKPITWEQIGGLEDAKRKLKQSIEWPLKF 488

Query:   313 STAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALL 372
                F R+G++  +G LL+GPPGC                     GA+L+S +VG+SE +L
Sbjct:   489 PREFVRMGLTQPKGVLLYGPPGCAKTTLVRALATSCHCSFVSVSGADLFSPFVGDSEKIL 548

Query:   373 RNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL 424
                FQ+AR   P+++F DE D +   R   S T   V ER+LS LL E+DG+
Sbjct:   549 SQVFQQARANTPAVVFLDEIDSILGSRS-ISKTGCNVQERVLSVLLNELDGV 599

GO:0005524 "ATP binding" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

UNIPROTKB|F6UUI0 SPATA5L1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 785 (281.4 bits), Expect = 5.7e-107, Sum P(2) = 5.7e-107
 Identities = 177/411 (43%), Positives = 239/411 (58%)

Query:    18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC 77
             E  +GG   A ++LREL+  PL Y      LGL  PRG+LL GPPG GKT LVRAV RE 
Sbjct:   233 EAPLGGLSEAADSLRELLRLPLRYPRTLAALGLAVPRGVLLAGPPGVGKTQLVRAVAREA 292

Query:    78 GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD--HR 135
             GA L  +S  ++  A  GE+E+ +R  F +A   A  G P+++F+DE+DALCPRR   HR
Sbjct:   293 GAELLAVSAPALQGARPGETEENVRRVFGRARELASRG-PTLLFLDEVDALCPRRGGAHR 351

Query:   136 REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXX 195
               +  R  +Q+ TL+D  +  +     VVVVASTNR DA+DPALRR GRFD         
Sbjct:   352 APES-RAVAQVLTLLDGIRGDRD----VVVVASTNRPDALDPALRRPGRFDREVVIGTPT 406

Query:   196 XXXRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECA 255
                R  IL++ T K+P+ + VDL  +A    GYVGADL ALCREA + A+  S + N+  
Sbjct:   407 LKQRKAILQVITSKMPISSQVDLSLLAEMTVGYVGADLTALCREAALHALLHS-EKNKDN 465

Query:   256 GVLSVTMEDWRHARSVVGPSITRGVT--VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHS 313
               +  T  D+  A   + PS  R V   ++I  V WE IGGL D+K KL+Q++EWP+K  
Sbjct:   466 PAIDET--DFFEAFKKIQPSSFRSVIGLMDIKPVDWEQIGGLEDVKLKLKQSIEWPLKFP 523

Query:   314 TAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLR 373
               F R+G++  +G LL+GPPGC                     GA+L+S +VG+SE +L 
Sbjct:   524 REFVRMGLTQPKGVLLYGPPGCAKTTLVRALATSCHCSFVSVSGADLFSPFVGDSEKVLS 583

Query:   374 NTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL 424
               F++AR   P+I+F DE D +   R   S T   V ER+LS LL E+DG+
Sbjct:   584 QVFRQARANTPAIVFLDEIDSILGSRS-ISKTECNVQERVLSVLLNELDGV 633

GO:0005524 "ATP binding" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

UNIPROTKB|Q9BVQ7 SPATA5L1 "Spermatogenesis-associated protein 5-like protein 1" [Homo sapiens (taxid:9606)]

 Score = 791 (283.5 bits), Expect = 1.5e-106, Sum P(2) = 1.5e-106
 Identities = 176/410 (42%), Positives = 245/410 (59%)

Query:    18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC 77
             E  +GG   A ++LREL+  PL Y      LGL  PRG+LL GPPG GKT LVRAV RE 
Sbjct:   199 EVPLGGLSEAADSLRELLRLPLRYPRALTALGLAVPRGVLLAGPPGVGKTQLVRAVAREA 258

Query:    78 GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRRE 137
             GA L  +S  ++  +  GE+E+ +R  F +A   A  G PS++F+DE+DALCP+R  R  
Sbjct:   259 GAELLAVSAPALQGSRPGETEENVRRVFQRARELASRG-PSLLFLDEMDALCPQRGSRAP 317

Query:   138 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXX 197
             +  R+ +Q+ TL+D     +     VVVV +TNR DA+DPALRR GRFD           
Sbjct:   318 ES-RVVAQVLTLLDGASGDR----EVVVVGATNRPDALDPALRRPGRFDREVVIGTPTLK 372

Query:   198 XRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGV 257
              R EIL++ T K+P+ ++VDL  +A    GYVGADL ALCREA M A+  S + N+   V
Sbjct:   373 QRKEILQVITSKMPISSHVDLGLLAEMTVGYVGADLTALCREAAMHALLHS-EKNQDNPV 431

Query:   258 LSVTMEDWRHARSVVGPSITRGVT--VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTA 315
             +     D+  A   + PS  R V   ++I  V WE+IGGL D+K KL+Q++EWP+K    
Sbjct:   432 IDEI--DFLEAFKNIQPSSFRSVIGLMDIKPVDWEEIGGLEDVKLKLKQSIEWPLKFPWE 489

Query:   316 FSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNT 375
             F R+G++  +G LL+GPPGC                     GA+L+S +VG+SE +L   
Sbjct:   490 FVRMGLTQPKGVLLYGPPGCAKTTLVRALATSCHCSFVSVSGADLFSPFVGDSEKVLSQI 549

Query:   376 FQRARLAAPSIIFFDEAD-VVGAKRGGSSSTSITVGERLLSTLLTEMDGL 424
             F++AR + P+I+F DE D ++GA+   +S T   V ER+LS LL E+DG+
Sbjct:   550 FRQARASTPAILFLDEIDSILGAR--SASKTGCDVQERVLSVLLNELDGV 597

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|G3X757 VCP "Transitional endoplasmic reticulum ATPase" [Bos taurus (taxid:9913)]

 Score = 1050 (374.7 bits), Expect = 4.0e-106, P = 4.0e-106
 Identities = 218/518 (42%), Positives = 314/518 (60%)

Query:    21 IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
             IGG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E GA 
Sbjct:   206 IGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF 265

Query:    81 LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQD 139
               +I+   +     GESE  LR+AF +A  +A    P+++FIDE+DA+ P+R+    E +
Sbjct:   266 FFLINGPEIMSKLAGESESNLRKAFEEAEKNA----PAIIFIDELDAIAPKREKTHGEVE 321

Query:   140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
              RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD            R
Sbjct:   322 RRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 377

Query:   200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA-------- 251
              EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D         
Sbjct:   378 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI 437

Query:   252 -NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPI 310
               E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGGL D+K++LQ+ V++P+
Sbjct:   438 DAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYPV 497

Query:   311 KHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEA 370
             +H   F + G++P +G L +GPPGC                     G EL +M+ GESEA
Sbjct:   498 EHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEA 557

Query:   371 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGI 430
              +R  F +AR AAP ++FFDE D +   RGG+        +R+++ +LTEMDG+   K +
Sbjct:   558 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNV 617

Query:   431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAE 490
              ++ ATNRP  ID A++RPGR D ++Y+P PD ++R  IL+ + R   V  DVDL  +A+
Sbjct:   618 FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAK 677

Query:   491 ETELFTGAELEGLCREAGIVALREDISATAVRNRHFQT 528
              T  F+GA+L  +C+ A  +A+RE I +   R R  QT
Sbjct:   678 MTNGFSGADLTEICQRACKLAIRESIESEIRRERERQT 715

GO:0070842 "aggresome assembly" evidence=IEA

GO:0045732 "positive regulation of protein catabolic process" evidence=IEA

GO:0035861 "site of double-strand break" evidence=IEA

GO:0031593 "polyubiquitin binding" evidence=IEA

GO:0031334 "positive regulation of protein complex assembly" evidence=IEA

GO:0030970 "retrograde protein transport, ER to cytosol" evidence=IEA

GO:0019904 "protein domain specific binding" evidence=IEA

GO:0019903 "protein phosphatase binding" evidence=IEA

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=IEA

GO:0006919 "activation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0006302 "double-strand break repair" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

UNIPROTKB|Q3ZBT1 VCP "Transitional endoplasmic reticulum ATPase" [Bos taurus (taxid:9913)]

 Score = 1050 (374.7 bits), Expect = 4.0e-106, P = 4.0e-106
 Identities = 218/518 (42%), Positives = 314/518 (60%)

Query:    21 IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
             IGG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E GA 
Sbjct:   206 IGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF 265

Query:    81 LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQD 139
               +I+   +     GESE  LR+AF +A  +A    P+++FIDE+DA+ P+R+    E +
Sbjct:   266 FFLINGPEIMSKLAGESESNLRKAFEEAEKNA----PAIIFIDELDAIAPKREKTHGEVE 321

Query:   140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
              RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD            R
Sbjct:   322 RRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 377

Query:   200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA-------- 251
              EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D         
Sbjct:   378 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI 437

Query:   252 -NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPI 310
               E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGGL D+K++LQ+ V++P+
Sbjct:   438 DAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYPV 497

Query:   311 KHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEA 370
             +H   F + G++P +G L +GPPGC                     G EL +M+ GESEA
Sbjct:   498 EHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEA 557

Query:   371 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGI 430
              +R  F +AR AAP ++FFDE D +   RGG+        +R+++ +LTEMDG+   K +
Sbjct:   558 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNV 617

Query:   431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAE 490
              ++ ATNRP  ID A++RPGR D ++Y+P PD ++R  IL+ + R   V  DVDL  +A+
Sbjct:   618 FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAK 677

Query:   491 ETELFTGAELEGLCREAGIVALREDISATAVRNRHFQT 528
              T  F+GA+L  +C+ A  +A+RE I +   R R  QT
Sbjct:   678 MTNGFSGADLTEICQRACKLAIRESIESEIRRERERQT 715

GO:0019985 "translesion synthesis" evidence=ISS

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0006974 "response to DNA damage stimulus" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

GO:0035861 "site of double-strand break" evidence=ISS

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=ISS

GO:0030433 "ER-associated protein catabolic process" evidence=ISS

GO:0005829 "cytosol" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008289 "lipid binding" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9ZPR1	CD48B_ARATH	No assigned EC number	0.7466	0.9558	0.9684	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00002582001 SubName- Full=Chromosome undetermined scaffold_133, whole genome shotgun sequence; (605 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	611
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	1e-177
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	1e-147
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	1e-87
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	2e-85
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	1e-75
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	3e-71
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	3e-68
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	5e-61
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	8e-60
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	9e-59
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	1e-57
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	6e-57
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	2e-54
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	1e-51
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	2e-51
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	3e-50
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	1e-47
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	7e-45
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	8e-42
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	1e-41
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	1e-41
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	4e-38
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	5e-37
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	1e-36
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	8e-36
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	5e-34
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	6e-33
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	5e-29
CHL00195	489	CHL00195, ycf46, Ycf46; Provisional	9e-24
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	2e-22
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	2e-19
CHL00195	489	CHL00195, ycf46, Ycf46; Provisional	2e-17
smart00382	148	smart00382, AAA, ATPases associated with a variety	2e-14
smart00382	148	smart00382, AAA, ATPases associated with a variety	3e-12
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	4e-10
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	1e-08
COG0714	329	COG0714, COG0714, MoxR-like ATPases [General funct	5e-07
PHA02544	316	PHA02544, 44, clamp loader, small subunit; Provisi	6e-07
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	2e-06
COG0542	786	COG0542, clpA, ATP-binding subunits of Clp proteas	3e-06
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	4e-06
TIGR00763	775	TIGR00763, lon, ATP-dependent protease La	1e-05
TIGR00635	305	TIGR00635, ruvB, Holliday junction DNA helicase, R	2e-05
COG1224	450	COG1224, TIP49, DNA helicase TIP49, TBP-interactin	4e-05
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	5e-05
pfam06068	395	pfam06068, TIP49, TIP49 C-terminus	6e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	7e-05
TIGR03922	557	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPas	8e-05
pfam07728	135	pfam07728, AAA_5, AAA domain (dynein-related subfa	9e-05
COG1224	450	COG1224, TIP49, DNA helicase TIP49, TBP-interactin	2e-04
COG2255	332	COG2255, RuvB, Holliday junction resolvasome, heli	2e-04
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	4e-04
pfam06068	395	pfam06068, TIP49, TIP49 C-terminus	5e-04
TIGR03420	226	TIGR03420, DnaA_homol_Hda, DnaA regulatory inactiv	5e-04
pfam13671	143	pfam13671, AAA_33, AAA domain	6e-04
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	8e-04
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	0.001
pfam13401	124	pfam13401, AAA_22, AAA domain	0.001
COG1484	254	COG1484, DnaC, DNA replication protein [DNA replic	0.001
PRK00080	328	PRK00080, ruvB, Holliday junction DNA helicase Ruv	0.002
COG0593	408	COG0593, DnaA, ATPase involved in DNA replication	0.002
COG0802	149	COG0802, COG0802, Predicted ATPase or kinase [Gene	0.002
COG5265	497	COG5265, ATM1, ABC-type transport system involved	0.003
pfam00910	105	pfam00910, RNA_helicase, RNA helicase	0.004

>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score =  520 bits (1340), Expect = e-177
 Identities = 254/560 (45%), Positives = 358/560 (63%), Gaps = 38/560 (6%)

Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           E IGG + A E +RE++  P+ +    + LG++ P+G+LLYGPPGTGKT L +AV  E G
Sbjct: 178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAG 237

Query: 79  AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-E 137
           A+   I+   +   + GESE+ LRE F +A  +A    PS++FIDEIDA+ P+R+    E
Sbjct: 238 AYFISINGPEIMSKYYGESEERLREIFKEAEENA----PSIIFIDEIDAIAPKREEVTGE 293

Query: 138 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE 197
            + R+ +QL TLMD  K        V+V+ +TNR DA+DPALRR GRFD E+ + VP   
Sbjct: 294 VEKRVVAQLLTLMDGLKGRG----RVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKR 349

Query: 198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKR---------- 247
            R EILK++T+ +PL  +VDL+ +A   +G+VGADL AL +EA M+A++R          
Sbjct: 350 ARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIREGKINFE 409

Query: 248 -SSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAV 306
                 E    L VTM+D+  A  +V PS  R V VE+P V W DIGGL ++K++L++AV
Sbjct: 410 AEEIPAEVLKELKVTMKDFMEALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAV 469

Query: 307 EWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVG 366
           EWP+KH   F ++GI P +G LL GPPG  KT LAKA A  + A+F ++ G E+ S +VG
Sbjct: 470 EWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVG 529

Query: 367 ESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ 426
           ESE  +R  F++AR AAP+IIFFDE D +   RG    TS+T  +R+++ LLTEMDG+++
Sbjct: 530 ESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVT--DRIVNQLLTEMDGIQE 587

Query: 427 AKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLR 486
              ++V+AATNRP  +D AL+RPGRFD ++ VPPPD EAR EI ++HTR+M + +DVDL 
Sbjct: 588 LSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLE 647

Query: 487 SIAEETELFTGAELEGLCREAGIVALREDISATA----------------VRNRHFQTVK 530
            +AE TE +TGA++E +CREA + ALRE I + A                V  RHF    
Sbjct: 648 ELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKEKLEVGEEEFLKDLKVEMRHFLEAL 707

Query: 531 DSLKPALTKEEIDSYSSFMK 550
             +KP+++KE++  Y    K
Sbjct: 708 KKVKPSVSKEDMLRYERLAK 727

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus. Length = 733

>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

 Score =  434 bits (1118), Expect = e-147
 Identities = 228/510 (44%), Positives = 315/510 (61%), Gaps = 21/510 (4%)

Query: 38  PLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGES 97
           PL      +KLG++ P+G+LL+GPPGTGKT L RA+  E GA    I+   +   +VGES
Sbjct: 3   PLKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGES 61

Query: 98  EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQDVRIASQLFTLMDSNKPS 156
           E  LRE F +A   A    PS++FIDEIDAL P+R   + E + R+ +QL  LMD  K  
Sbjct: 62  ELRLRELFEEAEKLA----PSIIFIDEIDALAPKRSSDQGEVERRVVAQLLALMDGLKRG 117

Query: 157 KTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV 216
           +     V+V+ +TNR D +DPA RR GRFD E+EV +P    R EIL+++T+ + L    
Sbjct: 118 Q-----VIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDEAGRLEILQIHTRLMFLGPPG 172

Query: 217 DLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSI 276
             + +A    G  GADL AL +EA +  ++R+ D       + VT +D+  A   V PS 
Sbjct: 173 TGKTLAARTVGKSGADLGALAKEAALRELRRAID--LVGEYIGVTEDDFEEALKKVLPS- 229

Query: 277 TRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCS 336
            RGV  E   VT +DIGGL + K++L++A+E P+K    F +LG+ P +G LL+GPPG  
Sbjct: 230 -RGVLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTG 288

Query: 337 KTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVG 396
           KT LAKA A  + + F S+ G+EL S +VGESE  +R  F++AR  APSIIF DE D + 
Sbjct: 289 KTLLAKAVALESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLA 348

Query: 397 AKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVL 456
           + RG S   S   G R++  LLTE+DG+E+A+G+LV+AATNRP  +D AL+RPGRFD ++
Sbjct: 349 SGRGPSEDGS---GRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLI 405

Query: 457 YVPPPDLEARHEILRVHTRNMKV--GDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           YVP PDLE R EI ++H R+ K    +DVDL  +AE TE ++GA++  L REA + ALRE
Sbjct: 406 YVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALRE 465

Query: 515 DISATAVRNRHFQTVKDSLKPALTKEEIDS 544
                 V    F      +KP++T EE   
Sbjct: 466 AR-RREVTLDDFLDALKKIKPSVTYEEWKE 494

Length = 494

>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase; Provisional

 Score =  277 bits (710), Expect = 1e-87
 Identities = 117/249 (46%), Positives = 159/249 (63%), Gaps = 10/249 (4%)

Query: 282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLA 341
           +E P VT+EDIGGL +  +++++AVE P+K    F  +GI P +G LL+GPPG  KT LA
Sbjct: 123 IESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLA 182

Query: 342 KAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGG 401
           KA AH   A+F  + G+EL   ++GE   L+R  F+ AR  APSIIF DE D + AKR  
Sbjct: 183 KAVAHETNATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKR-- 240

Query: 402 SSSTSITVGE----RLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLY 457
             + S T G+    R L  LL EMDG +    + ++AATNR   +D A++RPGRFD ++ 
Sbjct: 241 --TDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIE 298

Query: 458 VPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDIS 517
           VP PD E R EIL++HTR M + DDVDL  +AE TE  +GA+L+ +C EAG+ A+R+D  
Sbjct: 299 VPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIRDD-- 356

Query: 518 ATAVRNRHF 526
            T V    F
Sbjct: 357 RTEVTMEDF 365

Length = 389

>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

 Score =  272 bits (697), Expect = 2e-85
 Identities = 111/233 (47%), Positives = 153/233 (65%)

Query: 283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAK 342
           E P VT+EDIGGL +  +++++ VE P+K+   F  LGI P +G LL+GPPG  KT LAK
Sbjct: 144 EKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAK 203

Query: 343 AAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGS 402
           A A+  +A+F  + G+EL   Y+GE   L+R  F+ AR  APSIIF DE D +GAKR  S
Sbjct: 204 AVANQTDATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDS 263

Query: 403 SSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPD 462
            ++     +R +  LL ++DG +    + V+ ATNRP  +D AL+RPGRFD  +  P PD
Sbjct: 264 GTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPD 323

Query: 463 LEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRED 515
            E R EIL++HTR M + DDVDL  +A  TE F+GA+L+ +C EAG+ A+RE 
Sbjct: 324 EEGRAEILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICTEAGMFAIRER 376

Length = 406

>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family

 Score =  245 bits (627), Expect = 1e-75
 Identities = 114/232 (49%), Positives = 157/232 (67%)

Query: 283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAK 342
           E P V++EDIGGL +  +++++AVE P+KH   F  +GI P +G LL+GPPG  KT LAK
Sbjct: 115 ERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAK 174

Query: 343 AAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGS 402
           A AH   A+F  + G+EL   Y+GE   L+R  F+ A+  APSIIF DE D + AKR  S
Sbjct: 175 AVAHETNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDS 234

Query: 403 SSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPD 462
            ++     +R L  LL E+DG +    + V+AATNRP  +D AL+RPGRFD ++ VP PD
Sbjct: 235 GTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPD 294

Query: 463 LEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
            E R EIL++HTR MK+ +DVDL +IA+ TE  +GA+L+ +C EAG+ A+RE
Sbjct: 295 FEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICTEAGMFAIRE 346

Many proteins may score above the trusted cutoff because an internal. Length = 364

>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score =  243 bits (622), Expect = 3e-71
 Identities = 119/233 (51%), Positives = 155/233 (66%), Gaps = 3/233 (1%)

Query: 284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKA 343
           +PKVT+EDIGGL++ K+K+++ VE P+KH   F  LGI P +G LL+GPPG  KT LAKA
Sbjct: 172 VPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKA 231

Query: 344 AAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSS 403
            A+ A A F S++G E+ S Y GESE  LR  F+ A   APSIIF DE D +  KR    
Sbjct: 232 VANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKR---E 288

Query: 404 STSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDL 463
             +  V +R+++ LLT MDGL+    ++V+ ATNRP A+D AL RPGRFD  + +  PD 
Sbjct: 289 EVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDK 348

Query: 464 EARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDI 516
            AR EIL+VHTRNM + +DVDL  +AE T  F GA+L  L +EA + ALR  I
Sbjct: 349 RARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFI 401

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus. Length = 733

>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH

 Score =  229 bits (586), Expect = 3e-68
 Identities = 107/260 (41%), Positives = 160/260 (61%), Gaps = 3/260 (1%)

Query: 272 VGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHG 331
            G S  + +  E PKVT++D+ G+ + K++L + V++ +K+ + F++LG    +G LL G
Sbjct: 37  FGKSKAKLLNEEKPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVG 95

Query: 332 PPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDE 391
           PPG  KT LAKA A  A   FFS+SG++   M+VG   + +R+ F++A+  AP IIF DE
Sbjct: 96  PPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDE 155

Query: 392 ADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGR 451
            D VG +RG          E+ L+ LL EMDG     G++V+AATNRP  +D AL+RPGR
Sbjct: 156 IDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGR 215

Query: 452 FDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVA 511
           FD  + V  PD++ R EIL+VH +N K+  DVDL+++A  T  F+GA+L  L  EA ++A
Sbjct: 216 FDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAALLA 275

Query: 512 LREDISATAVRNRHFQTVKD 531
            R++   T +     +   D
Sbjct: 276 ARKN--KTEITMNDIEEAID 293

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 495

>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

 Score =  210 bits (536), Expect = 5e-61
 Identities = 108/263 (41%), Positives = 150/263 (57%), Gaps = 20/263 (7%)

Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           + IGG   A E L+E I  PL      +KLGL+ P+G+LLYGPPGTGKT L +AV  E  
Sbjct: 242 DDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESR 301

Query: 79  AH-LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-R 136
           +  ++V     + K  VGESEK +RE F +    A    PS++FIDEID+L   R     
Sbjct: 302 SRFISVKGSELLSK-WVGESEKNIRELFEK----ARKLAPSIIFIDEIDSLASGRGPSED 356

Query: 137 EQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTA 196
               R+  QL T +D  + ++     V+V+A+TNR D +DPAL R GRFD  + V +P  
Sbjct: 357 GSGRRVVGQLLTELDGIEKAE----GVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDL 412

Query: 197 EERFEILKLYTK--KVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANEC 254
           EER EI K++ +  K PL  +VDLE +A    GY GAD+ AL REA + A++ +      
Sbjct: 413 EERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALREARRRE-- 470

Query: 255 AGVLSVTMEDWRHARSVVGPSIT 277
                VT++D+  A   + PS+T
Sbjct: 471 -----VTLDDFLDALKKIKPSVT 488

Length = 494

>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like protein; Provisional

 Score =  204 bits (521), Expect = 8e-60
 Identities = 103/273 (37%), Positives = 151/273 (55%), Gaps = 15/273 (5%)

Query: 266 RHARSVV-------GPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSR 318
           RH+ +VV         SI      E P VT+ DIGGL   K+++++AVE P+     + +
Sbjct: 114 RHSHAVVDILPPEADSSIQLLQMSEKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQ 173

Query: 319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQR 378
           +GI P RG LL+GPPG  KT LAKA AH   A+F  + G+E    Y+GE   ++R+ F+ 
Sbjct: 174 IGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYLGEGPRMVRDVFRL 233

Query: 379 ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR 438
           AR  APSIIF DE D +  KR  + + +    +R+L  LL +MDG +Q   + V+ ATNR
Sbjct: 234 ARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNR 293

Query: 439 PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGA 498
              +D AL+RPGR D  +  P PD   +  I +  T  M + ++VDL       E  + A
Sbjct: 294 ADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAA 353

Query: 499 ELEGLCREAGIVALREDISATAVRNRHFQTVKD 531
           ++  +C+EAG+ A+R        +NR+    KD
Sbjct: 354 DIAAICQEAGMQAVR--------KNRYVILPKD 378

Length = 398

>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated

 Score =  207 bits (529), Expect = 9e-59
 Identities = 104/236 (44%), Positives = 144/236 (61%), Gaps = 9/236 (3%)

Query: 287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAH 346
           +T+ DI G+ + K++ ++ V + +K    F+ +G    +G LL GPPG  KT LAKA A 
Sbjct: 180 ITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAG 238

Query: 347 AAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTS 406
            AE  FFS+SG+E   M+VG   A +R+ F++A+  +P I+F DE D VG +RG      
Sbjct: 239 EAEVPFFSISGSEFVEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRG----AG 294

Query: 407 ITVG----ERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPD 462
           I  G    E+ L+ LLTEMDG +  KG++V+AATNR   +DAAL+RPGRFD  + V  PD
Sbjct: 295 IGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPD 354

Query: 463 LEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISA 518
            E R +IL+VH RN K+  DV L  IA  T  F+GA+L  L  EA I+  R   + 
Sbjct: 355 REGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARRKKAT 410

Length = 638

>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

 Score =  203 bits (519), Expect = 1e-57
 Identities = 103/259 (39%), Positives = 152/259 (58%), Gaps = 3/259 (1%)

Query: 273 GPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGP 332
           G S  +    +  KVT+ D+ G+ + K++L + V+  +K+   +  LG    +G LL GP
Sbjct: 133 GKSKAKLYLEDQVKVTFADVAGVDEAKEELSELVD-FLKNPKKYQALGAKIPKGVLLVGP 191

Query: 333 PGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEA 392
           PG  KT LAKA A  A   FFS+SG++   M+VG   + +R+ F++A+  AP IIF DE 
Sbjct: 192 PGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEI 251

Query: 393 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRF 452
           D VG +RG          E+ L+ LL EMDG    +G++V+AATNRP  +D AL+RPGRF
Sbjct: 252 DAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAATNRPDVLDPALLRPGRF 311

Query: 453 DLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVAL 512
           D  + V  PD++ R +IL+VH +N  + +DVDL+ IA  T  F+GA+L  L  EA ++A 
Sbjct: 312 DRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSGADLANLLNEAALLAA 371

Query: 513 REDISATAVRNRHFQTVKD 531
           R +     +  R  +   D
Sbjct: 372 RRN--KKEITMRDIEEAID 388

Length = 596

>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

 Score =  196 bits (501), Expect = 6e-57
 Identities = 104/261 (39%), Positives = 147/261 (56%), Gaps = 26/261 (9%)

Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           E IGG    ++ +RE++  PL      ++LG+  P+G+LLYGPPGTGKT L +AV  +  
Sbjct: 151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTD 210

Query: 79  AH-LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR----- 132
           A  + V+    V K ++GE  + +RE F  A   A    PS++FIDEIDA+  +R     
Sbjct: 211 ATFIRVVGSELVQK-YIGEGARLVRELFELAREKA----PSIIFIDEIDAIGAKRFDSGT 265

Query: 133 DHRRE-QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEV 191
              RE Q  R   +L   +D   P      +V V+ +TNR D +DPAL R GRFD ++E 
Sbjct: 266 SGDREVQ--RTMLELLNQLDGFDPRG----NVKVIMATNRPDILDPALLRPGRFDRKIEF 319

Query: 192 TVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA 251
            +P  E R EILK++T+K+ L  +VDLE +A    G+ GADL+A+C EA M A++   D 
Sbjct: 320 PLPDEEGRAEILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICTEAGMFAIRERRD- 378

Query: 252 NECAGVLSVTMEDWRHARSVV 272
                   VTMED+  A   V
Sbjct: 379 -------EVTMEDFLKAVEKV 392

Length = 406

>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like protein; Provisional

 Score =  191 bits (486), Expect = 2e-54
 Identities = 89/230 (38%), Positives = 138/230 (60%)

Query: 285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAA 344
           P  ++ DIGGL    +++++AVE P+ H   +  +GI P +G +L+GPPG  KT LAKA 
Sbjct: 178 PLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAV 237

Query: 345 AHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSS 404
           A+   A+F  + G+EL   Y+G+   L+R  F+ A   APSI+F DE D +G KR  ++S
Sbjct: 238 ANETSATFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATS 297

Query: 405 TSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLE 464
                 +R +  LL ++DG +    + V+ ATNR  ++D AL+RPGR D  +  P PD +
Sbjct: 298 GGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEK 357

Query: 465 ARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
            +  I  +HT  M + +DVDL       +  +GA+++ +C EAG++ALRE
Sbjct: 358 TKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRE 407

Length = 438

>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase; Provisional

 Score =  181 bits (463), Expect = 1e-51
 Identities = 103/255 (40%), Positives = 143/255 (56%), Gaps = 26/255 (10%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           IGG    +  +RE +  PL      +++G++ P+G+LLYGPPGTGKT L +AV  E  A 
Sbjct: 133 IGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT 192

Query: 81  -LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----- 134
            + V+    V K  +GE  + +RE F  A   A    PS++FIDEIDA+  +R       
Sbjct: 193 FIRVVGSELVQK-FIGEGARLVRELFELAREKA----PSIIFIDEIDAIAAKRTDSGTSG 247

Query: 135 RRE-QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV 193
            RE Q  R   QL   MD   P      +V ++A+TNR+D +DPA+ R GRFD  +EV +
Sbjct: 248 DREVQ--RTLMQLLAEMDGFDPRG----NVKIIAATNRIDILDPAILRPGRFDRIIEVPL 301

Query: 194 PTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE 253
           P  E R EILK++T+K+ L  +VDLE +A    G  GADL+A+C EA M A++       
Sbjct: 302 PDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIRDDRT--- 358

Query: 254 CAGVLSVTMEDWRHA 268
                 VTMED+  A
Sbjct: 359 -----EVTMEDFLKA 368

Length = 389

>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed

 Score =  187 bits (475), Expect = 2e-51
 Identities = 104/261 (39%), Positives = 154/261 (59%), Gaps = 3/261 (1%)

Query: 273 GPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGP 332
           G S  R +T +  K T+ D+ G  + K+++ + VE+ ++  + F +LG    +G L+ GP
Sbjct: 135 GKSKARMLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGP 193

Query: 333 PGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEA 392
           PG  KT LAKA A  A+  FF++SG++   M+VG   + +R+ F++A+ AAP IIF DE 
Sbjct: 194 PGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEI 253

Query: 393 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRF 452
           D VG +RG          E+ L+ +L EMDG E  +GI+V+AATNRP  +D AL+RPGRF
Sbjct: 254 DAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRF 313

Query: 453 DLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVAL 512
           D  + V  PD+  R +IL+VH R + +  D+D   IA  T  F+GA+L  L  EA + A 
Sbjct: 314 DRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAA 373

Query: 513 REDISATAVRNRHFQTVKDSL 533
           R +     V    F+  KD +
Sbjct: 374 RGN--KRVVSMVEFEKAKDKI 392

Length = 644

>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family

 Score =  177 bits (451), Expect = 3e-50
 Identities = 102/254 (40%), Positives = 146/254 (57%), Gaps = 20/254 (7%)

Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           E IGG    +  +RE +  PL +    +++G++ P+G+LLYGPPGTGKT L +AV  E  
Sbjct: 122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN 181

Query: 79  AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR---DHR 135
           A    +    + + ++GE  + +RE F  A   A    PS++FIDEIDA+  +R      
Sbjct: 182 ATFIRVVGSELVRKYIGEGARLVREIFELAKEKA----PSIIFIDEIDAIAAKRTDSGTS 237

Query: 136 REQDV-RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVP 194
            +++V R   QL   +D   P      +V V+A+TNR D +DPAL R GRFD  +EV +P
Sbjct: 238 GDREVQRTLMQLLAELDGFDPRG----NVKVIAATNRPDILDPALLRPGRFDRIIEVPLP 293

Query: 195 TAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANEC 254
             E R EILK++T+K+ L  +VDLEAIA    G  GADL+A+C EA M A++   D    
Sbjct: 294 DFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICTEAGMFAIREERDY--- 350

Query: 255 AGVLSVTMEDWRHA 268
                VTM+D+  A
Sbjct: 351 -----VTMDDFIKA 359

Many proteins may score above the trusted cutoff because an internal. Length = 364

>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH

 Score =  174 bits (442), Expect = 1e-47
 Identities = 98/256 (38%), Positives = 135/256 (52%), Gaps = 27/256 (10%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           + G   A E L E++ F L   S+  KLG K P+G+LL GPPGTGKT L +AV  E G  
Sbjct: 57  VAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP 115

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-------D 133
              IS     +  VG     +R+ F QA  +A    P ++FIDEIDA+  +R       +
Sbjct: 116 FFSISGSDFVEMFVGVGASRVRDLFEQAKKNA----PCIIFIDEIDAVGRQRGAGLGGGN 171

Query: 134 HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV 193
             REQ +   +QL   MD    +      V+V+A+TNR D +DPAL R GRFD +V V +
Sbjct: 172 DEREQTL---NQLLVEMDGFGTNT----GVIVIAATNRPDVLDPALLRPGRFDRQVVVDL 224

Query: 194 PTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE 253
           P  + R EILK++ K   L  +VDL+A+A    G+ GADL  L  EA + A +++     
Sbjct: 225 PDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAALLAARKNKTE-- 282

Query: 254 CAGVLSVTMEDWRHAR 269
                 +TM D   A 
Sbjct: 283 ------ITMNDIEEAI 292

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 495

>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score =  155 bits (393), Expect = 7e-45
 Identities = 63/133 (47%), Positives = 83/133 (62%), Gaps = 5/133 (3%)

Query: 328 LLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSII 387
           LL+GPPG  KTTLAKA A    A F  +SG+EL S YVGESE  LR  F+ A+  AP +I
Sbjct: 2   LLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVI 61

Query: 388 FFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKG-ILVLAATNRPHAIDAAL 446
           F DE D +   RG       +   R+++ LLTE+DG   +   ++V+AATNRP  +D AL
Sbjct: 62  FIDEIDALAGSRGSGGD---SESRRVVNQLLTELDGFTSSLSKVIVIAATNRPDKLDPAL 118

Query: 447 MRPGRFDLVLYVP 459
           +R GRFD ++  P
Sbjct: 119 LR-GRFDRIIEFP 130

AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes. Length = 131

>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score =  146 bits (372), Expect = 8e-42
 Identities = 66/137 (48%), Positives = 84/137 (61%), Gaps = 9/137 (6%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSG 115
           LLLYGPPGTGKT+L +AV +E GA    IS   +   +VGESEK LRE F  A   A   
Sbjct: 1   LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLA--- 57

Query: 116 KPSVVFIDEIDALCPRRDHRREQDV-RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA 174
            P V+FIDEIDAL   R    + +  R+ +QL T +D      +S+  V+V+A+TNR D 
Sbjct: 58  -PCVIFIDEIDALAGSRGSGGDSESRRVVNQLLTELD---GFTSSLSKVIVIAATNRPDK 113

Query: 175 IDPALRRSGRFDAEVEV 191
           +DPAL R GRFD  +E 
Sbjct: 114 LDPALLR-GRFDRIIEF 129

AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes. Length = 131

>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

 Score =  159 bits (403), Expect = 1e-41
 Identities = 97/249 (38%), Positives = 131/249 (52%), Gaps = 27/249 (10%)

Query: 23  GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT 82
           G   A E L EL+ F L    + Q LG K P+G+LL GPPGTGKT L +AV  E G    
Sbjct: 154 GVDEAKEELSELVDF-LKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFF 212

Query: 83  VISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-------HR 135
            IS     +  VG     +R+ F QA  +A    P ++FIDEIDA+  +R          
Sbjct: 213 SISGSDFVEMFVGVGASRVRDLFEQAKKNA----PCIIFIDEIDAVGRQRGAGLGGGNDE 268

Query: 136 REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPT 195
           REQ +    QL   MD    ++     V+V+A+TNR D +DPAL R GRFD ++ V +P 
Sbjct: 269 REQTLN---QLLVEMDGFGGNE----GVIVIAATNRPDVLDPALLRPGRFDRQILVELPD 321

Query: 196 AEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECA 255
            + R +ILK++ K  PL  +VDL+ IA    G+ GADL  L  EA + A +R+       
Sbjct: 322 IKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSGADLANLLNEAALLAARRNKK----- 376

Query: 256 GVLSVTMED 264
               +TM D
Sbjct: 377 ---EITMRD 382

Length = 596

>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase

 Score =  157 bits (399), Expect = 1e-41
 Identities = 81/205 (39%), Positives = 118/205 (57%), Gaps = 16/205 (7%)

Query: 283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAK 342
           E+P VT+ DIGGL    ++++ AVE P  H   +   G+ P +G LL+GPPGC KT +AK
Sbjct: 175 EVPDVTYADIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAK 234

Query: 343 AAAHA----------AEASFFSLSGAELYSMYVGESEALLRNTFQRARLAA----PSIIF 388
           A A++           ++ F ++ G EL + YVGE+E  +R  FQRAR  A    P I+F
Sbjct: 235 AVANSLAARIGAEGGGKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKASEGRPVIVF 294

Query: 389 FDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMR 448
           FDE D +   RG  S  S  V   ++  LL E+DG+E    ++V+ A+NR   ID A++R
Sbjct: 295 FDEMDSLFRTRG--SGVSSDVETTVVPQLLAEIDGVESLDNVIVIGASNREDMIDPAILR 352

Query: 449 PGRFDLVLYVPPPDLEARHEILRVH 473
           PGR D+ + +  PD EA  +I   +
Sbjct: 353 PGRLDVKIRIERPDAEAAADIFAKY 377

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 512

>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like protein; Provisional

 Score =  145 bits (367), Expect = 4e-38
 Identities = 83/232 (35%), Positives = 125/232 (53%), Gaps = 14/232 (6%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA- 79
           IGG     + +RE +  PL      +++G+  PRG+LLYGPPGTGKT L +AV     A 
Sbjct: 147 IGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAT 206

Query: 80  HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRREQ 138
            + V+    V K ++GE  + +R+ F  A  +A    PS++FIDE+D++  +R D +   
Sbjct: 207 FIRVVGSEFVQK-YLGEGPRMVRDVFRLARENA----PSIIFIDEVDSIATKRFDAQTGA 261

Query: 139 D---VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPT 195
           D    RI  +L   MD    +      V V+ +TNR D +DPAL R GR D ++E  +P 
Sbjct: 262 DREVQRILLELLNQMDGFDQTTN----VKVIMATNRADTLDPALLRPGRLDRKIEFPLPD 317

Query: 196 AEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKR 247
             ++  I +  T K+ L   VDLE   +       AD+ A+C+EA M AV++
Sbjct: 318 RRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRK 369

Length = 398

>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like protein; Provisional

 Score =  142 bits (361), Expect = 5e-37
 Identities = 86/254 (33%), Positives = 139/254 (54%), Gaps = 22/254 (8%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA- 79
           IGG    ++ ++E +  PL +      +G+K P+G++LYGPPGTGKT L +AV  E  A 
Sbjct: 185 IGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSAT 244

Query: 80  HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR---DHRR 136
            L V+    + K ++G+  K +RE F  A  +A    PS+VFIDEIDA+  +R       
Sbjct: 245 FLRVVGSELIQK-YLGDGPKLVRELFRVAEENA----PSIVFIDEIDAIGTKRYDATSGG 299

Query: 137 EQDV-RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPT 195
           E+++ R   +L   +D           V V+ +TNR++++DPAL R GR D ++E   P 
Sbjct: 300 EKEIQRTMLELLNQLDGFDSRGD----VKVIMATNRIESLDPALIRPGRIDRKIEFPNPD 355

Query: 196 AEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECA 255
            + +  I +++T K+ L  +VDLE    + +   GAD++A+C EA + A++         
Sbjct: 356 EKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRERR------ 409

Query: 256 GVLSVTMEDWRHAR 269
             + VT  D+R A+
Sbjct: 410 --MKVTQADFRKAK 421

Length = 438

>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated

 Score =  144 bits (365), Expect = 1e-36
 Identities = 89/234 (38%), Positives = 126/234 (53%), Gaps = 19/234 (8%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           I G   A E   E+++F L    +   +G K P+G+LL GPPGTGKT L +A+  E    
Sbjct: 185 IAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP 243

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----- 135
              IS     +  VG     +R+ F +A  ++    P +VFIDEIDA+  +R        
Sbjct: 244 FFSISGSEFVEMFVGVGAARVRDLFKKAKENS----PCIVFIDEIDAVGRQRGAGIGGGN 299

Query: 136 --REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV 193
             REQ +   +QL T MD  K +K     V+V+A+TNRVD +D AL R GRFD ++ V++
Sbjct: 300 DEREQTL---NQLLTEMDGFKGNKG----VIVIAATNRVDILDAALLRPGRFDRQITVSL 352

Query: 194 PTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKR 247
           P  E R +ILK++ +   L  +V LE IA    G+ GADL  L  EA +   +R
Sbjct: 353 PDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARR 406

Length = 638

>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed

 Score =  142 bits (359), Expect = 8e-36
 Identities = 92/252 (36%), Positives = 137/252 (54%), Gaps = 20/252 (7%)

Query: 2   ESKGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGP 61
           +SK R+++E   K    +  G + A  E + EL+ + L   S+ QKLG K P+G+L+ GP
Sbjct: 136 KSKARMLTEDQIKTTFADVAGCDEAK-EEVAELVEY-LREPSRFQKLGGKIPKGVLMVGP 193

Query: 62  PGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVF 121
           PGTGKT L +A+  E       IS     +  VG     +R+ F QA   A    P ++F
Sbjct: 194 PGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAA----PCIIF 249

Query: 122 IDEIDALCPRR-------DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA 174
           IDEIDA+  +R          REQ +   +Q+   MD  + ++     ++V+A+TNR D 
Sbjct: 250 IDEIDAVGRQRGAGLGGGHDEREQTL---NQMLVEMDGFEGNEG----IIVIAATNRPDV 302

Query: 175 IDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLE 234
           +DPAL R GRFD +V V +P    R +ILK++ ++VPL  ++D   IA    G+ GADL 
Sbjct: 303 LDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLA 362

Query: 235 ALCREATMSAVK 246
            L  EA + A +
Sbjct: 363 NLVNEAALFAAR 374

Length = 644

>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General function prediction only]

 Score =  133 bits (335), Expect = 5e-34
 Identities = 75/250 (30%), Positives = 129/250 (51%), Gaps = 11/250 (4%)

Query: 281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTL 340
              I  +T +D+ G  + K+K +  +E+ +++   F     +P +  L +GPPG  KT +
Sbjct: 112 REIISDITLDDVIGQEEAKRKCRLIMEY-LENPERFGDW--AP-KNVLFYGPPGTGKTMM 167

Query: 341 AKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRG 400
           AKA A+ A+     +   EL   +VG+    +   ++RAR AAP I+F DE D +   R 
Sbjct: 168 AKALANEAKVPLLLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRR 227

Query: 401 GSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPP 460
                   V E +++ LLTE+DG+++ +G++ +AATNRP  +D A+    RF+  +    
Sbjct: 228 YQELRG-DVSE-IVNALLTELDGIKENEGVVTIAATNRPELLDPAIR--SRFEEEIEFKL 283

Query: 461 PDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAEL-EGLCREAGIVALREDISAT 519
           P+ E R EIL  + +   +  D DLR +A +T+  +G ++ E + + A   A+ ED    
Sbjct: 284 PNDEERLEILEYYAKKFPLPVDADLRYLAAKTKGMSGRDIKEKVLKTALHRAIAED--RE 341

Query: 520 AVRNRHFQTV 529
            V     +  
Sbjct: 342 KVEREDIEKA 351

Length = 368

>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General function prediction only]

 Score =  129 bits (326), Expect = 6e-33
 Identities = 73/207 (35%), Positives = 111/207 (53%), Gaps = 20/207 (9%)

Query: 51  KW-PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQAS 109
            W P+ +L YGPPGTGKT + +A+  E    L ++    +   HVG+  + + E + +A 
Sbjct: 148 DWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGDGARRIHELYERAR 207

Query: 110 SHALSGKPSVVFIDEIDALCPRRDHRREQDVR-----IASQLFTLMDSNKPSKTSVPHVV 164
             A    P +VFIDE+DA+      RR Q++R     I + L T +D  K ++     VV
Sbjct: 208 KAA----PCIVFIDELDAIAL---DRRYQELRGDVSEIVNALLTELDGIKENEG----VV 256

Query: 165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATS 224
            +A+TNR + +DPA+R   RF+ E+E  +P  EER EIL+ Y KK PL  + DL  +A  
Sbjct: 257 TIAATNRPELLDPAIR--SRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLAAK 314

Query: 225 CNGYVGADL-EALCREATMSAVKRSSD 250
             G  G D+ E + + A   A+    +
Sbjct: 315 TKGMSGRDIKEKVLKTALHRAIAEDRE 341

Length = 368

>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase

 Score =  120 bits (303), Expect = 5e-29
 Identities = 80/257 (31%), Positives = 128/257 (49%), Gaps = 27/257 (10%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAV------- 73
           IGG  + +E +R+ +  P L+    ++ GLK P+G+LLYGPPG GKT + +AV       
Sbjct: 184 IGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAKAVANSLAAR 243

Query: 74  ----VRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALC 129
                      L +  P  ++K +VGE+E+ +R  F +A   A  G+P +VF DE+D+L 
Sbjct: 244 IGAEGGGKSYFLNIKGPELLNK-YVGETERQIRLIFQRAREKASEGRPVIVFFDEMDSLF 302

Query: 130 PRRDHRREQDVR--IASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDA 187
             R      DV   +  QL   +D  +    S+ +V+V+ ++NR D IDPA+ R GR D 
Sbjct: 303 RTRGSGVSSDVETTVVPQLLAEIDGVE----SLDNVIVIGASNREDMIDPAILRPGRLDV 358

Query: 188 EVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKR 247
           ++ +  P AE   +I   Y     L  ++ L     + +G   A   AL  +  + A+  
Sbjct: 359 KIRIERPDAEAAADIFAKY-----LTDDLPLPEDLAAHDGDREATAAAL-IQRVVDALYA 412

Query: 248 SSDANECAGVLSVTMED 264
            S+AN     + VT  +
Sbjct: 413 RSEANR---YVEVTYAN 426

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 512

>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional

 Score =  104 bits (262), Expect = 9e-24
 Identities = 82/288 (28%), Positives = 133/288 (46%), Gaps = 36/288 (12%)

Query: 285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSR----LGISPVRGALLHGPPGCSKTTL 340
                 DIGGL +LK        W  K ST+FS+     G+   RG LL G  G  K+  
Sbjct: 223 VNEKISDIGGLDNLKD-------WLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLT 275

Query: 341 AKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEAD--VVGAK 398
           AKA A+  +     L   +L+   VGESE+ +R   + A   +P I++ DE D     ++
Sbjct: 276 AKAIANDWQLPLLRLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSE 335

Query: 399 RGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYV 458
             G S T+     R+L+T +T +   E+   + V+A  N    +   ++R GRFD + ++
Sbjct: 336 SKGDSGTT----NRVLATFITWLS--EKKSPVFVVATANNIDLLPLEILRKGRFDEIFFL 389

Query: 459 PPPDLEARHEILRVHTRNMKVG--DDVDLRSIAEETELFTGAELEGLCREAGIVALREDI 516
             P LE R +I ++H +  +       D++ +++ +  F+GAE+E    EA  +A  E  
Sbjct: 390 DLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFYE-- 447

Query: 517 SATAVRNRHFQTVKDSLKPALTK----EEIDSYSSFMKSQSPKSSGRV 560
                  R F T  D +  AL +     + +        Q+  SSGR+
Sbjct: 448 ------KREFTT--DDILLALKQFIPLAQTEK-EQIEALQNWASSGRI 486

Length = 489

>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

 Score = 93.7 bits (233), Expect = 2e-22
 Identities = 48/174 (27%), Positives = 71/174 (40%), Gaps = 29/174 (16%)

Query: 293 GGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---E 349
            G  +  + L++A+E P               +  LL+GPPG  KTTLA+A A+      
Sbjct: 1   VGQEEAIEALREALELPPP-------------KNLLLYGPPGTGKTTLARAIANELFRPG 47

Query: 350 ASFFSLSGAELYSMYVGESEA---LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTS 406
           A F  L+ ++L    V        L+R  F+ A  A P ++F DE D +           
Sbjct: 48  APFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLSRG-------- 99

Query: 407 ITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPP 460
                 LL  L T  D     + + V+ ATNRP   D       R D+ + +P 
Sbjct: 100 --AQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 151

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases. Length = 151

>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

 Score = 84.9 bits (210), Expect = 2e-19
 Identities = 41/142 (28%), Positives = 62/142 (43%), Gaps = 14/142 (9%)

Query: 53  PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQAS 109
           P+ LLLYGPPGTGKT+L RA+  E    GA    ++   + +  V  +E           
Sbjct: 19  PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLV-VAELFGHFLVRLLF 77

Query: 110 SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST 169
             A   KP V+FIDEID+L               + L  ++++    +    +V V+ +T
Sbjct: 78  ELAEKAKPGVLFIDEIDSLSRGAQ----------NALLRVLETLNDLRIDRENVRVIGAT 127

Query: 170 NRVDAIDPALRRSGRFDAEVEV 191
           NR    D       R D  + +
Sbjct: 128 NRPLLGDLDRALYDRLDIRIVI 149

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases. Length = 151

>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional

 Score = 85.1 bits (211), Expect = 2e-17
 Identities = 61/199 (30%), Positives = 98/199 (49%), Gaps = 16/199 (8%)

Query: 41  YSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKA 100
           +S QA   GL  PRGLLL G  GTGK+   +A+  +    L  +    +    VGESE  
Sbjct: 247 FSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGESESR 306

Query: 101 LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDV--RIASQLFT-LMDSNKPSK 157
           +R+    A   ALS  P +++IDEID      + + +     R+ +   T L +   P  
Sbjct: 307 MRQMIRIA--EALS--PCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSP-- 360

Query: 158 TSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA--N 215
                V VVA+ N +D +   + R GRFD    + +P+ EER +I K++ +K    +   
Sbjct: 361 -----VFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKK 415

Query: 216 VDLEAIATSCNGYVGADLE 234
            D++ ++   N + GA++E
Sbjct: 416 YDIKKLSKLSNKFSGAEIE 434

Length = 489

>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 70.5 bits (172), Expect = 2e-14
 Identities = 37/152 (24%), Positives = 53/152 (34%), Gaps = 26/152 (17%)

Query: 328 LLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS--------------MYVGESEA 370
           L+ GPPG  KTTLA+A A            + G ++                   G  E 
Sbjct: 6   LIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGEL 65

Query: 371 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGI 430
            LR     AR   P ++  DE          S   +      LL   L  +  L+  K +
Sbjct: 66  RLRLALALARKLKPDVLILDEIT--------SLLDAEQEALLLLLEELRLLLLLKSEKNL 117

Query: 431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPD 462
            V+  TN    +  AL+R  RFD  + +    
Sbjct: 118 TVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment. Length = 148

>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 64.3 bits (156), Expect = 3e-12
 Identities = 42/160 (26%), Positives = 65/160 (40%), Gaps = 30/160 (18%)

Query: 53  PRGLLLYGPPGTGKTSLVRAVVRECG-----------------AHLTVISPHSVHKAHVG 95
              +L+ GPPG+GKT+L RA+ RE G                     ++      K   G
Sbjct: 2   GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASG 61

Query: 96  ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP 155
             E  LR A + A       KP V+ +DEI +L    D  +E  + +  +L  L+     
Sbjct: 62  SGELRLRLALALARKL----KPDVLILDEITSLL---DAEQEALLLLLEELRLLLLLKSE 114

Query: 156 SKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPT 195
              +     V+ +TN    + PAL R  RFD  + + +  
Sbjct: 115 KNLT-----VILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment. Length = 148

>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed

 Score = 62.0 bits (152), Expect = 4e-10
 Identities = 30/83 (36%), Positives = 42/83 (50%), Gaps = 15/83 (18%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSG 115
           ++L+GPPGTGKT+L R +     A    +S      A V    K LRE   +A     +G
Sbjct: 39  MILWGPPGTGKTTLARIIAGATDAPFEALS------A-VTSGVKDLREVIEEARQRRSAG 91

Query: 116 KPSVVFIDEI--------DALCP 130
           + +++FIDEI        DAL P
Sbjct: 92  RRTILFIDEIHRFNKAQQDALLP 114

Length = 413

>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

 Score = 57.2 bits (139), Expect = 1e-08
 Identities = 47/193 (24%), Positives = 80/193 (41%), Gaps = 42/193 (21%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSG 115
           ++L+GPPGTGKT+L R +     A    +S        V    K LRE   +A  + L G
Sbjct: 51  MILWGPPGTGKTTLARLIAGTTNAAFEALSA-------VTSGVKDLREIIEEARKNRLLG 103

Query: 116 KPSVVFIDEIDALCPRRDHR---REQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST--N 170
           + +++F+DEI        HR    +QD      L   +++          ++++ +T  N
Sbjct: 104 RRTILFLDEI--------HRFNKAQQDA-----LLPHVENG--------TIILIGATTEN 142

Query: 171 RVDAIDPALR-RSGRF------DAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIAT 223
               ++PAL  R+  F        +++  +  A    E   L  + + LD    L+ +  
Sbjct: 143 PSFELNPALLSRARVFELKPLSSEDIKKLLKRALL-DEERGLGGQIIVLDEEA-LDYLVR 200

Query: 224 SCNGYVGADLEAL 236
             NG     L  L
Sbjct: 201 LSNGDARRALNLL 213

Length = 436

>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction only]

 Score = 51.7 bits (124), Expect = 5e-07
 Identities = 42/173 (24%), Positives = 61/173 (35%), Gaps = 41/173 (23%)

Query: 328 LLHGPPGCSKTTLAKAAAHAAEASFF------SLSGAELYSMYVGESEALLRNT--FQRA 379
           LL GPPG  KT LA+A A A    F        L  ++L   Y   +  L      F   
Sbjct: 47  LLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVPG 106

Query: 380 RL--AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD-------GLEQAK-- 428
            L  A   I+  DE +    +              + + LL  ++       GL   +  
Sbjct: 107 PLFAAVRVILLLDEINRAPPE--------------VQNALLEALEERQVTVPGLTTIRLP 152

Query: 429 -GILVLAATNRP-----HAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTR 475
              +V+A  N       + +  AL+   RF L +YV  PD E    I+     
Sbjct: 153 PPFIVIATQNPGEYEGTYPLPEALLD--RFLLRIYVDYPDSEEEERIILARVG 203

Length = 329

>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional

 Score = 51.1 bits (123), Expect = 6e-07
 Identities = 42/153 (27%), Positives = 70/153 (45%), Gaps = 31/153 (20%)

Query: 56  LLLYGP-PGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEK--ALREAFSQ-ASSH 111
           +LL+ P PGTGKT++ +A+  E GA +  ++         G   +   +R   ++ AS+ 
Sbjct: 45  MLLHSPSPGTGKTTVAKALCNEVGAEVLFVN---------GSDCRIDFVRNRLTRFASTV 95

Query: 112 ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR 171
           +L+G   V+ IDE D L      R          L + M+    SK    +   + + N 
Sbjct: 96  SLTGGGKVIIIDEFDRLGLADAQR---------HLRSFME--AYSK----NCSFIITANN 140

Query: 172 VDAIDPALRRSGRFDAEVEVTVPTAEERFEILK 204
            + I   LR   R    ++  VPT EE+ E++K
Sbjct: 141 KNGIIEPLR--SRCR-VIDFGVPTKEEQIEMMK 170

Length = 316

>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

 Score = 50.0 bits (120), Expect = 2e-06
 Identities = 51/253 (20%), Positives = 95/253 (37%), Gaps = 46/253 (18%)

Query: 53  PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALRE---AFSQAS 109
           P  +++YGP GTGKT+ V+ V+ E       +    ++   +    + L +      +  
Sbjct: 42  PSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVP 101

Query: 110 SHALS---------------GKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK 154
               S               GK  +V +DE+DAL       ++ +V     L++L+ +  
Sbjct: 102 LTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALV-----DKDGEV-----LYSLLRAPG 151

Query: 155 PSKTSVPHVVVVASTNRVDAIDPALRRS-GRFDAEVEVTVPTAEERFEILKLYTKKVPLD 213
            +K  V  + V      +D +DP ++ S G    E+     TAEE ++IL+   ++    
Sbjct: 152 ENKVKVSIIAVSNDDKFLDYLDPRVKSSLGPS--EIVFPPYTAEELYDILRERVEEG-FS 208

Query: 214 ANVDLEAIATSC---NGYVGADLE---ALCREATMSAVKRSSDANECAGVLSVTMEDWRH 267
           A V  + +             D      + R A   A +  S          V+ +  R 
Sbjct: 209 AGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSR--------KVSEDHVRE 260

Query: 268 ARSVVGPSITRGV 280
           A+  +   +   V
Sbjct: 261 AQEEIERDVLEEV 273

Length = 366

>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

 Score = 50.0 bits (120), Expect = 3e-06
 Identities = 46/163 (28%), Positives = 63/163 (38%), Gaps = 33/163 (20%)

Query: 328 LLHGPPGCSKTTLAKAAAH--AAEASFFSLSGAELYSM----------YVGESEALLRNT 375
           +L G PG  KT + +  A          SL    +YS+          Y GE E  L+  
Sbjct: 195 VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKYRGEFEERLKAV 254

Query: 376 FQRARLAAPSIIFFDEAD-VVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGIL-VL 433
            +    +   I+F DE   +VGA  G +   ++     L   L         A+G L  +
Sbjct: 255 LKEVEKSKNVILFIDEIHTIVGA--GATEGGAMDAANLLKPAL---------ARGELRCI 303

Query: 434 AATN----RPHA-IDAALMRPGRFDLVLYVPPPDLEARHEILR 471
            AT     R +   DAAL R  RF  V  V  P +E    ILR
Sbjct: 304 GATTLDEYRKYIEKDAALER--RFQKV-LVDEPSVEDTIAILR 343

Length = 786

>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown domain fusion protein; Reviewed

 Score = 49.7 bits (119), Expect = 4e-06
 Identities = 29/83 (34%), Positives = 43/83 (51%), Gaps = 14/83 (16%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSG 115
           L+LYGPPG GKT+L R +     AH + ++  +V  A V +    +  A  +   H   G
Sbjct: 55  LILYGPPGVGKTTLARIIANHTRAHFSSLN--AV-LAGVKDLRAEVDRAKERLERH---G 108

Query: 116 KPSVVFIDEI--------DALCP 130
           K +++FIDE+        DAL P
Sbjct: 109 KRTILFIDEVHRFNKAQQDALLP 131

Length = 725

>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La

 Score = 48.4 bits (116), Expect = 1e-05
 Identities = 46/169 (27%), Positives = 69/169 (40%), Gaps = 32/169 (18%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH-----KAH----VGESEKALREAFS 106
           L L GPPG GKTSL +++ +         S   V      + H    VG    A+     
Sbjct: 350 LCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHRRTYVG----AMPGRII 405

Query: 107 QASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS-----VP 161
           Q    A +  P +  +DEID +      R +     AS L  ++D  + +  S     VP
Sbjct: 406 QGLKKAKTKNP-LFLLDEIDKIG--SSFRGDP----ASALLEVLDPEQNNAFSDHYLDVP 458

Query: 162 ----HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLY 206
                V+ +A+ N +D I   L         +E++  T EE+ EI K Y
Sbjct: 459 FDLSKVIFIATANSIDTIPRPLLDRMEV---IELSGYTEEEKLEIAKKY 504

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 775

>gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit

 Score = 46.5 bits (111), Expect = 2e-05
 Identities = 48/185 (25%), Positives = 68/185 (36%), Gaps = 37/185 (20%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSG 115
           LLLYGPPG GKT+L   +  E G +L + S          E    L    +         
Sbjct: 33  LLLYGPPGLGKTTLAHIIANEMGVNLKITS------GPALEKPGDLAAILTNLEEG---- 82

Query: 116 KPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK--------PSKTSV----PHV 163
              V+FIDEI  L P           +   L+  M+  +        PS  SV    P  
Sbjct: 83  --DVLFIDEIHRLSP----------AVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPF 130

Query: 164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIA 222
            +V +T R   +   LR   RF   + +   T EE  EI+      + ++   +    IA
Sbjct: 131 TLVGATTRAGMLTSPLR--DRFGIILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIA 188

Query: 223 TSCNG 227
               G
Sbjct: 189 RRSRG 193

All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions [DNA metabolism, DNA replication, recombination, and repair]. Length = 305

>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein [Transcription]

 Score = 46.2 bits (110), Expect = 4e-05
 Identities = 24/57 (42%), Positives = 35/57 (61%), Gaps = 3/57 (5%)

Query: 325 RGALLHGPPGCSKTTLAKAAAH--AAEASFFSLSGAELYSMYVGESEALLRNTFQRA 379
           RG L+ GPPG  KT LA   A     +  F ++SG+E+YS+ V ++EAL +   +RA
Sbjct: 66  RGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLEVKKTEALTQA-LRRA 121

Length = 450

>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed

 Score = 45.8 bits (110), Expect = 5e-05
 Identities = 25/68 (36%), Positives = 33/68 (48%), Gaps = 11/68 (16%)

Query: 328 LLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPS-- 385
           +L GPPG  KTTLA+  A A +A F +LS         G  +  LR   + AR    +  
Sbjct: 40  ILWGPPGTGKTTLARIIAGATDAPFEALSAV-----TSGVKD--LREVIEEARQRRSAGR 92

Query: 386 --IIFFDE 391
             I+F DE
Sbjct: 93  RTILFIDE 100

Length = 413

>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus

 Score = 45.4 bits (108), Expect = 6e-05
 Identities = 22/57 (38%), Positives = 35/57 (61%), Gaps = 3/57 (5%)

Query: 325 RGALLHGPPGCSKTTLAKAAAHA--AEASFFSLSGAELYSMYVGESEALLRNTFQRA 379
           R  L+ GPPG  KT LA A +     +  F  +SG+E+YS+ + ++EAL +  F++A
Sbjct: 51  RAVLIAGPPGTGKTALAIAISKELGEDTPFCPISGSEVYSLEMKKTEALTQA-FRKA 106

This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases. Length = 395

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 45.3 bits (108), Expect = 7e-05
 Identities = 37/128 (28%), Positives = 50/128 (39%), Gaps = 47/128 (36%)

Query: 23  GNRAAVEALRELITFPLLYSSQAQKLGLKWPRG-----LLLYGPPGTGKTSLVRAVVREC 77
           GN  A E LRE I                W +G     LLLYGPPG GKTSL  A+  + 
Sbjct: 18  GNEKAKEQLREWIE--------------SWLKGKPKKALLLYGPPGVGKTSLAHALANDY 63

Query: 78  GAHL-----------TVISPHSVHKAHVGESEKALREAFSQASSHALSGKPS-VVFIDEI 125
           G  +            VI      +   GE+          A+S +L G    ++ +DE+
Sbjct: 64  GWEVIELNASDQRTADVI------ERVAGEA----------ATSGSLFGARRKLILLDEV 107

Query: 126 DALCPRRD 133
           D +    D
Sbjct: 108 DGIHGNED 115

Length = 482

>gnl|CDD|188437 TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA

 Score = 45.2 bits (107), Expect = 8e-05
 Identities = 45/182 (24%), Positives = 72/182 (39%), Gaps = 35/182 (19%)

Query: 46  QKLGLKWP---RGLLLYGPPGTGKTSLVRAVVRE-CG----AHLTVISPHSVHKA----- 92
            + GL        +L  GPPGTGKT++ R V +  CG        V     V +A     
Sbjct: 302 AERGLPVAQTSNHMLFAGPPGTGKTTIARVVAKIYCGLGVLRKPLVR---EVSRADLIGQ 358

Query: 93  HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQ-DVRIASQLFTLMD 151
           ++GESE    E        AL G   V+F+DE   L      +++   +     L   M+
Sbjct: 359 YIGESEAKTNEIIDS----ALGG---VLFLDEAYTLVETGYGQKDPFGLEAIDTLLARME 411

Query: 152 SNKPSKTSVPHVVVVAS-TNRVDA---IDPALRRSGRFDAEVEVTVPTAEERFEILKLYT 207
           +++        VV+ A     +D    ++  LR   RF   +E    + +E  EI +   
Sbjct: 412 NDRDR-----LVVIGAGYRKDLDKFLEVNEGLRS--RFTRVIEFPSYSPDELVEIARRMA 464

Query: 208 KK 209
            +
Sbjct: 465 TE 466

This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc [Protein fate, Protein and peptide secretion and trafficking]. Length = 557

>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily)

 Score = 42.3 bits (100), Expect = 9e-05
 Identities = 35/152 (23%), Positives = 55/152 (36%), Gaps = 38/152 (25%)

Query: 55  GLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKAL---REAFSQASSH 111
           G+LL GPPGTGK+ L   +     A      P    +     +E+ L   R      +S 
Sbjct: 1   GVLLVGPPGTGKSELAERL-----AAALSNRPVFYVQLTRDTTEEDLKGRRNIDPGGASW 55

Query: 112 ALS------GKPSVVFIDEID--------ALCPRRDHRREQDVRIASQLFTLMDSNKPSK 157
                     +  +  +DEI+        +L    D RR            L +  +  K
Sbjct: 56  VDGPLVRAAREGEIAVLDEINRANPDVLNSLLSLLDERR----------LLLPEGGELVK 105

Query: 158 TSVPHVVVVASTNRVDA----IDPALRRSGRF 185
            +     ++A+ N +D     + PALR   RF
Sbjct: 106 AAPDGFRLIATMNPLDRGLNELSPALRS--RF 135

This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 135

>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein [Transcription]

 Score = 43.9 bits (104), Expect = 2e-04
 Identities = 23/57 (40%), Positives = 33/57 (57%), Gaps = 3/57 (5%)

Query: 54  RGLLLYGPPGTGKTSLVRAVVRECGA--HLTVISPHSVHKAHVGESEKALREAFSQA 108
           RG+L+ GPPGTGKT+L   + RE G       IS   ++   V ++E AL +A  +A
Sbjct: 66  RGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLEVKKTE-ALTQALRRA 121

Length = 450

>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

 Score = 43.7 bits (104), Expect = 2e-04
 Identities = 24/75 (32%), Positives = 34/75 (45%), Gaps = 12/75 (16%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSG 115
           +LL+GPPG GKT+L   +  E G +L + S  ++ K         L    +         
Sbjct: 55  VLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEKP------GDLAAILTNLEEG---- 104

Query: 116 KPSVVFIDEIDALCP 130
              V+FIDEI  L P
Sbjct: 105 --DVLFIDEIHRLSP 117

Length = 332

>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain

 Score = 41.0 bits (96), Expect = 4e-04
 Identities = 21/87 (24%), Positives = 31/87 (35%), Gaps = 4/87 (4%)

Query: 53  PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHA 112
           P  +LL GP GTGKTSL+R ++                +       +ALRE   Q     
Sbjct: 24  PPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCD--QAERNPPYAFSQALRELLRQLLREL 81

Query: 113 LSGKPSVVFIDEIDALCPRRDHRREQD 139
            +    +   + + A          QD
Sbjct: 82  AAELLLLR--EALLAALGAELIEGLQD 106

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Length = 154

>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus

 Score = 42.3 bits (100), Expect = 5e-04
 Identities = 23/57 (40%), Positives = 34/57 (59%), Gaps = 3/57 (5%)

Query: 54  RGLLLYGPPGTGKTSLVRAVVRECGA--HLTVISPHSVHKAHVGESEKALREAFSQA 108
           R +L+ GPPGTGKT+L  A+ +E G       IS   V+   + ++E AL +AF +A
Sbjct: 51  RAVLIAGPPGTGKTALAIAISKELGEDTPFCPISGSEVYSLEMKKTE-ALTQAFRKA 106

This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases. Length = 395

>gnl|CDD|234203 TIGR03420, DnaA_homol_Hda, DnaA regulatory inactivator Hda

 Score = 41.4 bits (98), Expect = 5e-04
 Identities = 27/116 (23%), Positives = 44/116 (37%), Gaps = 32/116 (27%)

Query: 22  GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL 81
           GGN   + ALR+L                   R L L+G  G+GK+ L++A         
Sbjct: 20  GGNAELLAALRQLAAGKG-------------DRFLYLWGESGSGKSHLLQAACAAA---- 62

Query: 82  TVISPHSVHKAHVGESEK--ALREAFSQASSHALSGKP--SVVFIDEIDALCPRRD 133
                        G+S     L E  +QA    L G     +V +D+++A+  + +
Sbjct: 63  ----------EERGKSAIYLPLAEL-AQADPEVLEGLEQADLVCLDDVEAIAGQPE 107

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP [DNA metabolism, DNA replication, recombination, and repair]. Length = 226

>gnl|CDD|222307 pfam13671, AAA_33, AAA domain

 Score = 40.4 bits (95), Expect = 6e-04
 Identities = 22/91 (24%), Positives = 41/91 (45%), Gaps = 16/91 (17%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE----------SEKALREAF 105
           +L+ G PG+GK++  R ++RE GA   V+S  ++ K   G+          +   + +  
Sbjct: 2   ILMVGLPGSGKSTFARRLLRELGA--VVLSSDTLRKRLRGDGPPDISYYARASGRVYQRL 59

Query: 106 SQASSHALSGKPSVVFIDEIDALCPRRDHRR 136
            + +  AL     V+    +DA    R+ R 
Sbjct: 60  LELAREALRAGRPVI----VDATNLSREERA 86

This family of domains contain only a P-loop motif, that is characteristic of the AAA superfamily. Many of the proteins in this family are just short fragments so there is no Walker B motif. Length = 143

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 41.8 bits (99), Expect = 8e-04
 Identities = 37/134 (27%), Positives = 53/134 (39%), Gaps = 38/134 (28%)

Query: 285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAA 344
           PK T  D+ G    K++L+   EW        S L   P +  LL+GPPG  KT+LA A 
Sbjct: 10  PK-TLSDVVGNEKAKEQLR---EW------IESWLKGKPKKALLLYGPPGVGKTSLAHAL 59

Query: 345 AHAAEASFFSLSGAELYSM-------------YVGESEALLRNTFQRARLAAPSIIFFDE 391
           A+  +  +      E+  +               GE+ A   + F   R     +I  DE
Sbjct: 60  AN--DYGW------EVIELNASDQRTADVIERVAGEA-ATSGSLFGARR----KLILLDE 106

Query: 392 AD--VVGAKRGGSS 403
            D       RGG+ 
Sbjct: 107 VDGIHGNEDRGGAR 120

Length = 482

>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

 Score = 41.5 bits (98), Expect = 0.001
 Identities = 25/69 (36%), Positives = 32/69 (46%), Gaps = 11/69 (15%)

Query: 327 ALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRAR----LA 382
            +L GPPG  KTTLA+  A    A+F +LS        V      LR   + AR    L 
Sbjct: 51  MILWGPPGTGKTTLARLIAGTTNAAFEALSA-------VTSGVKDLREIIEEARKNRLLG 103

Query: 383 APSIIFFDE 391
             +I+F DE
Sbjct: 104 RRTILFLDE 112

Length = 436

>gnl|CDD|222104 pfam13401, AAA_22, AAA domain

 Score = 39.2 bits (92), Expect = 0.001
 Identities = 16/88 (18%), Positives = 28/88 (31%), Gaps = 12/88 (13%)

Query: 53  PRGLLLYGPPGTGKTSLVRAVVRE----CGAHLTVISPHSV--------HKAHVGESEKA 100
               +L G  G+GKT+L+R + R+       ++   S  +             +  S   
Sbjct: 4   AGIGVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLSGGT 63

Query: 101 LREAFSQASSHALSGKPSVVFIDEIDAL 128
             E               ++ IDE   L
Sbjct: 64  TAELLEAILDALKRRGRPLLIIDEAQHL 91

Length = 124

>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]

 Score = 40.9 bits (96), Expect = 0.001
 Identities = 33/134 (24%), Positives = 50/134 (37%), Gaps = 27/134 (20%)

Query: 1   MESKGRIMSEHNEKWKAEEAI-----GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRG 55
           +E + R  S    K   EE       G ++ A+E L  L+ F             +    
Sbjct: 61  IERRLRSASFPA-KKTFEEFDFEFQPGIDKKALEDLASLVEF------------FERGEN 107

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASS----H 111
           L+L GPPG GKT L  A+  E      + +  SV      +    L+ AF +        
Sbjct: 108 LVLLGPPGVGKTHLAIAIGNEL-----LKAGISVLFITAPDLLSKLKAAFDEGRLEEKLL 162

Query: 112 ALSGKPSVVFIDEI 125
               K  ++ ID+I
Sbjct: 163 RELKKVDLLIIDDI 176

Length = 254

>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed

 Score = 40.5 bits (96), Expect = 0.002
 Identities = 14/30 (46%), Positives = 20/30 (66%)

Query: 56 LLLYGPPGTGKTSLVRAVVRECGAHLTVIS 85
          +LLYGPPG GKT+L   +  E G ++ + S
Sbjct: 54 VLLYGPPGLGKTTLANIIANEMGVNIRITS 83

Length = 328

>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 36/193 (18%), Positives = 70/193 (36%), Gaps = 40/193 (20%)

Query: 305 AVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS-----LSGAE 359
           A         A++ L         ++G  G  KT L +A  + A A+  +     L+  +
Sbjct: 102 AKAVAENPGGAYNPL--------FIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSED 153

Query: 360 LYSMYVGESEALLRNTFQ--RARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL 417
             + +V   +AL  N  +  + + +   ++  D+   +  K            +      
Sbjct: 154 FTNDFV---KALRDNEMEKFKEKYSL-DLLLIDDIQFLAGKER---------TQEEFFHT 200

Query: 418 LTEMDGLEQAKGILVLAATNRPHAIDAALMRP---GRFD--LVLYVPPPDLEARHEILRV 472
                 L +    +VL +   P  +    +      R +  LV+ + PPD E R  ILR 
Sbjct: 201 FNA---LLENGKQIVLTSDRPPKEL--NGLEDRLRSRLEWGLVVEIEPPDDETRLAILRK 255

Query: 473 H--TRNMKVGDDV 483
               R +++ D+V
Sbjct: 256 KAEDRGIEIPDEV 268

Length = 408

>gnl|CDD|223873 COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]

 Score = 38.8 bits (91), Expect = 0.002
 Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 2/44 (4%)

Query: 45 AQKLGLKWPRG--LLLYGPPGTGKTSLVRAVVRECGAHLTVISP 86
           ++L      G  +LL G  G GKT+LVR + +  G    V SP
Sbjct: 15 GERLAEALKAGDVVLLSGDLGAGKTTLVRGIAKGLGVDGNVKSP 58

Length = 149

>gnl|CDD|227590 COG5265, ATM1, ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]

 Score = 40.0 bits (94), Expect = 0.003
 Identities = 25/102 (24%), Positives = 32/102 (31%), Gaps = 16/102 (15%)

Query: 308 WPIKHSTAFSRLGISPVRGALL---------HGPPGCSKTTLAKAAAHAAEASFFSLSGA 358
             +   +    +GI P    L          +G P  +   +  AA  A    F   S  
Sbjct: 328 RDVTQQSLRRAIGIVPQDTVLFNDTIAYNIKYGRPDATAEEVGAAAEAAQIHDFIQ-SLP 386

Query: 359 ELYSMYVGESEALL------RNTFQRARLAAPSIIFFDEADV 394
           E Y   VGE    L      R    R  L  P I+  DEA  
Sbjct: 387 EGYDTGVGERGLKLSGGEKQRVAIARTILKNPPILILDEATS 428

Length = 497

>gnl|CDD|216186 pfam00910, RNA_helicase, RNA helicase

 Score = 36.8 bits (86), Expect = 0.004
 Identities = 14/34 (41%), Positives = 20/34 (58%)

Query: 56 LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV 89
          + LYGPPG GK++L + + R    HL +    SV
Sbjct: 1  IWLYGPPGCGKSTLAKYLARALLKHLGLPKKDSV 34

This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses. Length = 105

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	611
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	100.0
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	100.0
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	100.0
KOG0736	953	consensus Peroxisome assembly factor 2 containing	100.0
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	100.0
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	100.0
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	100.0
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	100.0
CHL00195	489	ycf46 Ycf46; Provisional	100.0
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	100.0
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	100.0
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	100.0
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	100.0
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	100.0
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	100.0
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	100.0
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	100.0
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	100.0
PRK03992	389	proteasome-activating nucleotidase; Provisional	100.0
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	100.0
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	100.0
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	100.0
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	100.0
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0736	953	consensus Peroxisome assembly factor 2 containing	100.0
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	100.0
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	100.0
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	100.0
CHL00176	638	ftsH cell division protein; Validated	100.0
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	100.0
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	100.0
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	100.0
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	100.0
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	100.0
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	100.0
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	100.0
CHL00206	2281	ycf2 Ycf2; Provisional	100.0
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	100.0
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	100.0
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	100.0
PRK03992	389	proteasome-activating nucleotidase; Provisional	100.0
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	100.0
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	100.0
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	100.0
CHL00195	489	ycf46 Ycf46; Provisional	100.0
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	100.0
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.98
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.97
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.97
CHL00095	821	clpC Clp protease ATP binding subunit	99.97
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.97
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.97
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.97
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.97
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.97
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.97
CHL00176	638	ftsH cell division protein; Validated	99.96
PRK10865	857	protein disaggregation chaperone; Provisional	99.96
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.95
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.95
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.95
CHL00206	2281	ycf2 Ycf2; Provisional	99.95
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	99.91
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.88
CHL00181	287	cbbX CbbX; Provisional	99.88
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.87
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.87
CHL00181	287	cbbX CbbX; Provisional	99.87
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.87
PF00004	132	AAA: ATPase family associated with various cellula	99.87
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.86
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.86
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.86
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.85
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.83
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.83
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.82
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.81
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.81
PRK10865	857	protein disaggregation chaperone; Provisional	99.81
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	99.8
PF00004	132	AAA: ATPase family associated with various cellula	99.8
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.79
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.79
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.79
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.78
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.78
CHL00095	821	clpC Clp protease ATP binding subunit	99.78
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.78
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.77
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.76
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.76
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	99.76
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.76
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.75
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.75
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.74
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.74
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.74
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.74
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.74
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.73
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.73
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.73
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.72
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.72
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.71
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.7
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.7
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	99.7
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.7
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.69
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.69
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.69
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.69
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.69
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.68
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.68
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.68
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.68
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.68
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.68
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.68
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.68
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.67
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.67
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.67
PLN03025	319	replication factor C subunit; Provisional	99.67
PRK13342	413	recombination factor protein RarA; Reviewed	99.66
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.66
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.66
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.66
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.66
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.65
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.65
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.65
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.65
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.64
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.64
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.64
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.64
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.64
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.64
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.63
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.63
PRK04195	482	replication factor C large subunit; Provisional	99.63
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	99.63
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.63
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.62
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.62
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.62
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.62
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.62
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.62
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.62
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.62
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.62
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.61
PRK13341	725	recombination factor protein RarA/unknown domain f	99.61
PHA02544	316	44 clamp loader, small subunit; Provisional	99.61
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.6
KOG2028	554	consensus ATPase related to the helicase subunit o	99.6
PRK12402	337	replication factor C small subunit 2; Reviewed	99.6
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.59
PLN03025	319	replication factor C subunit; Provisional	99.59
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.59
PRK06893	229	DNA replication initiation factor; Validated	99.59
PRK13342	413	recombination factor protein RarA; Reviewed	99.59
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.59
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.59
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.58
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.58
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.58
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.58
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.58
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.58
PRK12422	445	chromosomal replication initiation protein; Provis	99.58
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.57
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.57
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.57
PRK08084	235	DNA replication initiation factor; Provisional	99.57
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.57
PRK04195	482	replication factor C large subunit; Provisional	99.56
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.56
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.56
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.55
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.55
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.55
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.54
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.54
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.54
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	99.54
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.53
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.53
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.53
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.53
KOG2028	554	consensus ATPase related to the helicase subunit o	99.53
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.53
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.53
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.53
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.52
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.52
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.52
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.52
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.51
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.51
PRK08727	233	hypothetical protein; Validated	99.51
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.51
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.51
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.51
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.5
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.5
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.5
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.5
PHA02544	316	44 clamp loader, small subunit; Provisional	99.5
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.5
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.5
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.49
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.49
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.49
PRK06620	214	hypothetical protein; Validated	99.49
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.48
PRK05642	234	DNA replication initiation factor; Validated	99.48
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.48
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.48
PRK12402	337	replication factor C small subunit 2; Reviewed	99.48
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.47
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	99.47
PRK13341	725	recombination factor protein RarA/unknown domain f	99.47
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.47
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.46
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.46
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.45
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.42
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.42
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.42
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	99.42
PRK08084	235	DNA replication initiation factor; Provisional	99.41
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.41
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	99.41
PRK06893	229	DNA replication initiation factor; Validated	99.41
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.41
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.39
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.39
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.39
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.39
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.38
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.38
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.38
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.38
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.37
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.37
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.37
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	99.37
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.37
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.37
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.36
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.35
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.35
PRK09087	226	hypothetical protein; Validated	99.34
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.34
PRK08727	233	hypothetical protein; Validated	99.34
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.34
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.33
PRK06871	325	DNA polymerase III subunit delta'; Validated	99.33
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.33
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.33
PRK07993	334	DNA polymerase III subunit delta'; Validated	99.33
PHA02244	383	ATPase-like protein	99.32
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.32
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.31
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.31
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.31
PRK12422	445	chromosomal replication initiation protein; Provis	99.31
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.31
PRK04132	846	replication factor C small subunit; Provisional	99.31
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.3
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.3
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.29
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	99.29
PHA02244	383	ATPase-like protein	99.28
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.28
PRK05642	234	DNA replication initiation factor; Validated	99.28
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.26
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.26
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.25
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	99.25
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.25
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.24
COG0714	329	MoxR-like ATPases [General function prediction onl	99.24
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.24
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.24
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.23
PRK08769	319	DNA polymerase III subunit delta'; Validated	99.23
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.22
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.22
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.21
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.21
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.21
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.2
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.19
PRK06090	319	DNA polymerase III subunit delta'; Validated	99.19
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.18
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.17
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.16
PRK06620	214	hypothetical protein; Validated	99.16
PF07726	131	AAA_3: ATPase family associated with various cellu	99.15
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.13
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.13
PRK13531	498	regulatory ATPase RavA; Provisional	99.13
COG0714	329	MoxR-like ATPases [General function prediction onl	99.12
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.1
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.09
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.09
smart00382	148	AAA ATPases associated with a variety of cellular	99.09
PRK08769	319	DNA polymerase III subunit delta'; Validated	99.08
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.08
PRK06871	325	DNA polymerase III subunit delta'; Validated	99.08
PRK04132	846	replication factor C small subunit; Provisional	99.07
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	99.06
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.06
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	99.06
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	99.05
PRK09087	226	hypothetical protein; Validated	99.05
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.04
PRK13531	498	regulatory ATPase RavA; Provisional	99.04
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	99.03
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.01
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.01
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.0
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.0
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	99.0
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	99.0
COG0606	490	Predicted ATPase with chaperone activity [Posttran	99.0
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.99
PRK06090	319	DNA polymerase III subunit delta'; Validated	98.99
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	98.97
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.97
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.97
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.97
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.96
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	98.96
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	98.95
PRK11608	326	pspF phage shock protein operon transcriptional ac	98.95
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	98.95
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.94
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.92
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	98.9
smart00382	148	AAA ATPases associated with a variety of cellular	98.9
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.89
smart00350	509	MCM minichromosome maintenance proteins.	98.87
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	98.87
PRK15424	538	propionate catabolism operon regulatory protein Pr	98.87
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.86
PRK07276	290	DNA polymerase III subunit delta'; Validated	98.86
smart00350	509	MCM minichromosome maintenance proteins.	98.86
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	98.86
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	98.85
PRK05917	290	DNA polymerase III subunit delta'; Validated	98.85
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.85
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	98.85
PF07726	131	AAA_3: ATPase family associated with various cellu	98.82
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	98.82
PRK12377	248	putative replication protein; Provisional	98.82
PRK05022	509	anaerobic nitric oxide reductase transcription reg	98.82
PRK05818	261	DNA polymerase III subunit delta'; Validated	98.81
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.81
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	98.81
COG2204	464	AtoC Response regulator containing CheY-like recei	98.81
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.8
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.8
PRK09862	506	putative ATP-dependent protease; Provisional	98.8
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.8
PRK11608	326	pspF phage shock protein operon transcriptional ac	98.78
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	98.77
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	98.77
PRK08116	268	hypothetical protein; Validated	98.77
KOG1514	767	consensus Origin recognition complex, subunit 1, a	98.76
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.76
PRK07952	244	DNA replication protein DnaC; Validated	98.76
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.75
PRK07132	299	DNA polymerase III subunit delta'; Validated	98.74
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.74
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	98.74
COG1221	403	PspF Transcriptional regulators containing an AAA-	98.74
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	98.72
PRK05022	509	anaerobic nitric oxide reductase transcription reg	98.71
KOG1514	767	consensus Origin recognition complex, subunit 1, a	98.71
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.7
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.7
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.7
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	98.69
PRK09862	506	putative ATP-dependent protease; Provisional	98.68
PRK15424	538	propionate catabolism operon regulatory protein Pr	98.68
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	98.67
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.67
PRK06835	329	DNA replication protein DnaC; Validated	98.67
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	98.65
PRK08181	269	transposase; Validated	98.64
PRK08116	268	hypothetical protein; Validated	98.64
PRK05917	290	DNA polymerase III subunit delta'; Validated	98.63
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.63
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	98.63
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.62
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.62
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.62
PRK06526	254	transposase; Provisional	98.61
PRK13765	637	ATP-dependent protease Lon; Provisional	98.61
KOG3595	1395	consensus Dyneins, heavy chain [Cytoskeleton]	98.6
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	98.6
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.6
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	98.59
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.58
PRK08181	269	transposase; Validated	98.58
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.57
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	98.56
PF13173	128	AAA_14: AAA domain	98.55
COG2204	464	AtoC Response regulator containing CheY-like recei	98.55
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.55
PRK09183	259	transposase/IS protein; Provisional	98.55
PRK06835	329	DNA replication protein DnaC; Validated	98.54
PRK12377	248	putative replication protein; Provisional	98.52
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	98.52
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.51
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.5
PRK08939	306	primosomal protein DnaI; Reviewed	98.49
PF13173	128	AAA_14: AAA domain	98.49
PRK07952	244	DNA replication protein DnaC; Validated	98.48
PRK07276	290	DNA polymerase III subunit delta'; Validated	98.48
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.48
PRK06921	266	hypothetical protein; Provisional	98.47
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.45
PRK07132	299	DNA polymerase III subunit delta'; Validated	98.45
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.44
PRK13765	637	ATP-dependent protease Lon; Provisional	98.43
PRK06526	254	transposase; Provisional	98.43
PRK05818	261	DNA polymerase III subunit delta'; Validated	98.43
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.41
PRK09302	509	circadian clock protein KaiC; Reviewed	98.41
PRK06921	266	hypothetical protein; Provisional	98.4
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	98.4
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.39
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	98.35
PRK09183	259	transposase/IS protein; Provisional	98.33
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	98.32
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.31
PF05729	166	NACHT: NACHT domain	98.31
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	98.31
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.3
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.3
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.3
KOG1808	1856	consensus AAA ATPase containing von Willebrand fac	98.28
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.28
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	98.27
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.25
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.23
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	98.22
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.21
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	98.21
PRK15115	444	response regulator GlrR; Provisional	98.19
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	98.17
PRK06851	367	hypothetical protein; Provisional	98.17
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	98.17
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	98.15
PRK08939	306	primosomal protein DnaI; Reviewed	98.14
PRK15115	444	response regulator GlrR; Provisional	98.13
PF14516	331	AAA_35: AAA-like domain	98.11
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.09
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.09
PHA00729	226	NTP-binding motif containing protein	98.09
PF05729	166	NACHT: NACHT domain	98.08
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	98.06
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.06
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.05
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.05
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	98.04
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	98.01
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.01
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.0
PRK06581	263	DNA polymerase III subunit delta'; Validated	97.99
PLN03210	1153	Resistant to P. syringae 6; Provisional	97.99
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.98
COG1241	682	MCM2 Predicted ATPase involved in replication cont	97.97
PRK10365	441	transcriptional regulatory protein ZraR; Provision	97.95
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	97.93
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.92
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.9

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.7e-99  Score=767.80  Aligned_cols=527  Identities=45%  Similarity=0.712  Sum_probs=492.1

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~   96 (611)
                      .|++|+|++.....|.+.+.. +.+++.|..+|+.||+++||+||||||||++|+++|.+++.+|+.+++.++.+...|+
T Consensus       188 ~f~diGG~d~~~~el~~li~~-i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvSGE  266 (802)
T KOG0733|consen  188 SFSDIGGLDKTLAELCELIIH-IKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSGE  266 (802)
T ss_pred             chhhccChHHHHHHHHHHHHH-hcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccCcc
Confidence            469999999999999999988 8999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccc
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l  175 (611)
                      +++.++++|+++....    |||+||||||.+.+.++ .+.++..+++.+|++.||+..........|+||++||+|+.+
T Consensus       267 SEkkiRelF~~A~~~a----PcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnRPDsl  342 (802)
T KOG0733|consen  267 SEKKIRELFDQAKSNA----PCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATNRPDSL  342 (802)
T ss_pred             cHHHHHHHHHHHhccC----CeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCCCCccc
Confidence            9999999999999775    99999999999999986 455778899999999999987766655679999999999999


Q ss_pred             cHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccc--
Q 007255          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE--  253 (611)
Q Consensus       176 ~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~--  253 (611)
                      ||+|+|+|||+++|.+..|+..+|.+||+.++++..++.++++..+|..|.||+|.||..+|.+|...+++|..+...  
T Consensus       343 DpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~d~~qlA~lTPGfVGADL~AL~~~Aa~vAikR~ld~~~~p  422 (802)
T KOG0733|consen  343 DPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDFDFKQLAKLTPGFVGADLMALCREAAFVAIKRILDQSSSP  422 (802)
T ss_pred             CHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCcCHHHHHhcCCCccchhHHHHHHHHHHHHHHHHhhcccCc
Confidence            999999999999999999999999999999999999999999999999999999999999999999999988654100  


Q ss_pred             ----------------------------------------------------cccccchhHHHHHHHHhccCCccccccc
Q 007255          254 ----------------------------------------------------CAGVLSVTMEDWRHARSVVGPSITRGVT  281 (611)
Q Consensus       254 ----------------------------------------------------~~~~~~v~~ed~~~a~~~i~~~~~~~~~  281 (611)
                                                                          ....+.+..+||..|...++|+..+..-
T Consensus       423 ~~~~~~~ed~~~~~~~~d~S~i~~~~~~~~~~~ld~v~~~~i~~~~d~~S~E~~~~L~i~~eDF~~Al~~iQPSakREGF  502 (802)
T KOG0733|consen  423 LTKVPISEDSSNKDAEEDQSSIKITSNAERPLELDRVVQDAILNNPDPLSKELLEGLSIKFEDFEEALSKIQPSAKREGF  502 (802)
T ss_pred             cccCCccccccCCCccchhhhhhcCCcccccccHHHHHHHHHHhCCCCcChHHhccceecHHHHHHHHHhcCcchhcccc
Confidence                                                                0112456789999999999999999999


Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      ..+|.++|+||+++++++.+|+.++.+|+++++.|+++|+..|.|+|||||||||||.||+|+|+|.+.+|+.+.+++++
T Consensus       503 ~tVPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELl  582 (802)
T KOG0733|consen  503 ATVPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELL  582 (802)
T ss_pred             eecCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc
Q 007255          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA  441 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~  441 (611)
                      ++|+|++|..++++|..|+...||||||||+|.|+++|+...   .....|++|+||.+|||++.+.+|.||++||+|+.
T Consensus       583 NkYVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~---s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDi  659 (802)
T KOG0733|consen  583 NKYVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDEG---SSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDI  659 (802)
T ss_pred             HHHhhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCCC---chhHHHHHHHHHHHhcccccccceEEEeecCCCcc
Confidence            999999999999999999999999999999999999997544   34578999999999999999999999999999999


Q ss_pred             cchhccCCCCccceeecCCCCHHHHHHHHHHHhc--CCCCCCcccHHHHHHhCC--CCCHHHHHHHHHHHHHHHHHhhcc
Q 007255          442 IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTR--NMKVGDDVDLRSIAEETE--LFTGAELEGLCREAGIVALREDIS  517 (611)
Q Consensus       442 ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~--~~~~~~~~~~~~la~~~~--g~s~~~i~~~~~~a~~~a~~~~~~  517 (611)
                      +|||++||||||+.+|+++|+.++|..||+.+++  +.++..++|++.+|..+.  ||||+|+..+|++|...|+++.+.
T Consensus       660 IDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~~~c~gftGADLaaLvreAsi~AL~~~~~  739 (802)
T KOG0733|consen  660 IDPAILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARNTKCEGFTGADLAALVREASILALRESLF  739 (802)
T ss_pred             cchhhcCCCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhcccccCCchhhHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999  788889999999998877  999999999999999999998752


Q ss_pred             c--------------ccccHHHHHHHHhhcCCCCCHHHHHHHHHHhhc
Q 007255          518 A--------------TAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKS  551 (611)
Q Consensus       518 ~--------------~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  551 (611)
                      .              ..++..||.+|+++++|++++.+...|....++
T Consensus       740 ~~~~~~~~~~~~~~~~~~t~~hF~eA~~~i~pSv~~~dr~~Yd~l~k~  787 (802)
T KOG0733|consen  740 EIDSSEDDVTVRSSTIIVTYKHFEEAFQRIRPSVSERDRKKYDRLNKS  787 (802)
T ss_pred             hccccCcccceeeeeeeecHHHHHHHHHhcCCCccHHHHHHHHHHhhh
Confidence            1              236778999999999999999999999887655

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=6.9e-93  Score=733.03  Aligned_cols=509  Identities=52%  Similarity=0.886  Sum_probs=487.8

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchH
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESE   98 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~   98 (611)
                      ++++|+....+.+++.+..|+..+..+...|.++|+++|+|||||||||.+++++|++.++.++.+++.++...+.|+++
T Consensus       184 ~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~~gEte  263 (693)
T KOG0730|consen  184 DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKFPGETE  263 (693)
T ss_pred             cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhcccchH
Confidence            58899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHH
Q 007255           99 KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPA  178 (611)
Q Consensus        99 ~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~  178 (611)
                      ..+++.|+++.....   |+++||||+|.+++.+........++..+++.+++....    ..+++++++||+++.||++
T Consensus       264 ~~LR~~f~~a~k~~~---psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~----~~~vivl~atnrp~sld~a  336 (693)
T KOG0730|consen  264 SNLRKAFAEALKFQV---PSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKP----DAKVIVLAATNRPDSLDPA  336 (693)
T ss_pred             HHHHHHHHHHhccCC---CeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcC----cCcEEEEEecCCccccChh
Confidence            999999999875432   999999999999998876666678999999999998763    3479999999999999999


Q ss_pred             hhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccccccccccc
Q 007255          179 LRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVL  258 (611)
Q Consensus       179 l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~  258 (611)
                      ++| |||+..+.+..|+..+|.+|++.+.+......+.++..++..++||+|.|+..+|++|...+.++           
T Consensus       337 lRR-gRfd~ev~IgiP~~~~RldIl~~l~k~~~~~~~~~l~~iA~~thGyvGaDL~~l~~ea~~~~~r~-----------  404 (693)
T KOG0730|consen  337 LRR-GRFDREVEIGIPGSDGRLDILRVLTKKMNLLSDVDLEDIAVSTHGYVGADLAALCREASLQATRR-----------  404 (693)
T ss_pred             hhc-CCCcceeeecCCCchhHHHHHHHHHHhcCCcchhhHHHHHHHccchhHHHHHHHHHHHHHHHhhh-----------
Confidence            999 99999999999999999999999999999888889999999999999999999999999988886           


Q ss_pred             chhHHHHHHHHhccCCcccccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChH
Q 007255          259 SVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKT  338 (611)
Q Consensus       259 ~v~~ed~~~a~~~i~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT  338 (611)
                        ++++|..+...+.|+..+.+..+.|+++|+||+|++++|+.|++.+.||++|++.|.++|+.||+|+|||||||||||
T Consensus       405 --~~~~~~~A~~~i~psa~Re~~ve~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT  482 (693)
T KOG0730|consen  405 --TLEIFQEALMGIRPSALREILVEMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKT  482 (693)
T ss_pred             --hHHHHHHHHhcCCchhhhheeccCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchH
Confidence              678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHH
Q 007255          339 TLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (611)
Q Consensus       339 ~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll  418 (611)
                      ++|+|+|++.+++|+.++++++.++|+|++|..++.+|+.|+...|||+|+||||++.+.|++.++   +..+|++++||
T Consensus       483 ~lAkalAne~~~nFlsvkgpEL~sk~vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~---~v~~RVlsqLL  559 (693)
T KOG0730|consen  483 LLAKALANEAGMNFLSVKGPELFSKYVGESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSS---GVTDRVLSQLL  559 (693)
T ss_pred             HHHHHHhhhhcCCeeeccCHHHHHHhcCchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCcc---chHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999974443   77899999999


Q ss_pred             HHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHH
Q 007255          419 TEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGA  498 (611)
Q Consensus       419 ~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~  498 (611)
                      ++|||++...+++||++||+|+.||+|++||||||++|+||+||.+.|.+||+.+++++++..++|++.||+.|+||||+
T Consensus       560 tEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~La~~T~g~SGA  639 (693)
T KOG0730|consen  560 TEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEELAQATEGYSGA  639 (693)
T ss_pred             HHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCCCCccccHHHHHHHhccCChH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCCCCCHHHHHHHHHHhhc
Q 007255          499 ELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKS  551 (611)
Q Consensus       499 ~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  551 (611)
                      ||..+|++|+..|+++.+....++..||.+++...+++++.++++.|++|.++
T Consensus       640 el~~lCq~A~~~a~~e~i~a~~i~~~hf~~al~~~r~s~~~~~~~~Ye~fa~~  692 (693)
T KOG0730|consen  640 EIVAVCQEAALLALRESIEATEITWQHFEEALKAVRPSLTSELLEKYEDFAAR  692 (693)
T ss_pred             HHHHHHHHHHHHHHHHhcccccccHHHHHHHHHhhcccCCHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999999999999999999999754

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=100.00  E-value=2.2e-75  Score=658.41  Aligned_cols=527  Identities=47%  Similarity=0.806  Sum_probs=478.9

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      ..+++|+|++++++.+.+.+..|+.+++.+..+|+.++.++||+||||||||++++++|++++.+++.+++.++...+.|
T Consensus       175 ~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~~g  254 (733)
T TIGR01243       175 VTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYG  254 (733)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhccccc
Confidence            45688999999999999999999999999999999999999999999999999999999999999999999999888999


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA  174 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~  174 (611)
                      .....++.+|+.+...    .|+||||||+|.+++.++. .++.+.+++.+|+.+++.....    ..+++|++||.++.
T Consensus       255 ~~~~~l~~lf~~a~~~----~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~----~~vivI~atn~~~~  326 (733)
T TIGR01243       255 ESEERLREIFKEAEEN----APSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGR----GRVIVIGATNRPDA  326 (733)
T ss_pred             HHHHHHHHHHHHHHhc----CCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccC----CCEEEEeecCChhh
Confidence            9999999999988644    4899999999999887643 2344567888999999876432    36899999999999


Q ss_pred             ccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccccc--
Q 007255          175 IDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN--  252 (611)
Q Consensus       175 l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~--  252 (611)
                      +|+++++++||+..+.++.|+.++|.+|++.+.....+..+.++..++..++||++.++..++++|...++++.....  
T Consensus       327 ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~d~~l~~la~~t~G~~gadl~~l~~~a~~~al~r~~~~~~~  406 (733)
T TIGR01243       327 LDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIREGKI  406 (733)
T ss_pred             cCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCccccCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHhhcccc
Confidence            999999999999999999999999999999998888887788899999999999999999999999998887753311  


Q ss_pred             ---------ccccccchhHHHHHHHHhccCCcccccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCC
Q 007255          253 ---------ECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISP  323 (611)
Q Consensus       253 ---------~~~~~~~v~~ed~~~a~~~i~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~  323 (611)
                               .......++.+||..+...+.|+..+......|.++|++++|++.+|+.|.+.+.+|+.+++.+.++|..+
T Consensus       407 ~~~~~~i~~~~~~~~~v~~~df~~Al~~v~ps~~~~~~~~~~~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~  486 (733)
T TIGR01243       407 NFEAEEIPAEVLKELKVTMKDFMEALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRP  486 (733)
T ss_pred             ccccccccchhcccccccHHHHHHHHhhccccccchhhccccccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCC
Confidence                     11234567889999999999998877777778999999999999999999999999999999999999999


Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCC
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSS  403 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~  403 (611)
                      ++|+|||||||||||++|+++|++++++|+.++++++.++|+|+++..++.+|..++...||||||||+|.+++.|+...
T Consensus       487 ~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~vGese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~  566 (733)
T TIGR01243       487 PKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARF  566 (733)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhcccCcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999886433


Q ss_pred             CCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcc
Q 007255          404 STSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDV  483 (611)
Q Consensus       404 ~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~  483 (611)
                      +  .....+++++||.+||++...++++||+|||+|+.+|++++||||||++|++|+|+.++|.+||+.+.++.+...++
T Consensus       567 ~--~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~  644 (733)
T TIGR01243       567 D--TSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDV  644 (733)
T ss_pred             C--ccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccC
Confidence            2  23567899999999999988899999999999999999999999999999999999999999999999999999999


Q ss_pred             cHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcc----------------cccccHHHHHHHHhhcCCCCCHHHHHHHHH
Q 007255          484 DLRSIAEETELFTGAELEGLCREAGIVALREDIS----------------ATAVRNRHFQTVKDSLKPALTKEEIDSYSS  547 (611)
Q Consensus       484 ~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~----------------~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~  547 (611)
                      +++.+|+.++||||+||.++|++|+..++++.+.                ...++..||..++.+++|++++++++.|++
T Consensus       645 ~l~~la~~t~g~sgadi~~~~~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~al~~~~ps~~~~~~~~~~~  724 (733)
T TIGR01243       645 DLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKEKLEVGEEEFLKDLKVEMRHFLEALKKVKPSVSKEDMLRYER  724 (733)
T ss_pred             CHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHhhhccchhhhcccccccccCcccHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            9999999999999999999999999999886431                236999999999999999999999999999


Q ss_pred             HhhcC
Q 007255          548 FMKSQ  552 (611)
Q Consensus       548 ~~~~~  552 (611)
                      |.+..
T Consensus       725 ~~~~~  729 (733)
T TIGR01243       725 LAKEL  729 (733)
T ss_pred             HHHHh
Confidence            98765

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.1e-73  Score=590.60  Aligned_cols=520  Identities=36%  Similarity=0.593  Sum_probs=444.2

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccch
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGES   97 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~   97 (611)
                      +-..-+.+..+-.+..++..+    ......+......+||+|+||||||++++++|+++|.+++.++|.++.....+.+
T Consensus       400 ~~~~~~~~~~~~~l~~vl~p~----~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~~  475 (953)
T KOG0736|consen  400 SLSPPGLEAKVLELVAVLSPQ----KQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASHT  475 (953)
T ss_pred             cCCCccchHHHHHHHHHhCcc----cCcchhccccceEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccchh
Confidence            334456666666555554322    2222234456678999999999999999999999999999999999999988889


Q ss_pred             HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccH
Q 007255           98 EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDP  177 (611)
Q Consensus        98 ~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~  177 (611)
                      +..+...|..++..    +|+|||+-++|.+.-+.++  ..+.+++..+...+..... ....+++++|++|+..+.+++
T Consensus       476 etkl~~~f~~a~~~----~pavifl~~~dvl~id~dg--ged~rl~~~i~~~ls~e~~-~~~~~~~ivv~t~~s~~~lp~  548 (953)
T KOG0736|consen  476 ETKLQAIFSRARRC----SPAVLFLRNLDVLGIDQDG--GEDARLLKVIRHLLSNEDF-KFSCPPVIVVATTSSIEDLPA  548 (953)
T ss_pred             HHHHHHHHHHHhhc----CceEEEEeccceeeecCCC--chhHHHHHHHHHHHhcccc-cCCCCceEEEEeccccccCCH
Confidence            99999999888744    6999999999998855544  3445666665555552111 123457999999999999999


Q ss_pred             HhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccc------
Q 007255          178 ALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA------  251 (611)
Q Consensus       178 ~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~------  251 (611)
                      .+++  .|..+|.++.|+.++|.+|++.++....++.++....++.+|.||+.+++..+.......+..+..+.      
T Consensus       549 ~i~~--~f~~ei~~~~lse~qRl~iLq~y~~~~~~n~~v~~k~~a~~t~gfs~~~L~~l~~~~s~~~~~~i~~~~l~g~~  626 (953)
T KOG0736|consen  549 DIQS--LFLHEIEVPALSEEQRLEILQWYLNHLPLNQDVNLKQLARKTSGFSFGDLEALVAHSSLAAKTRIKNKGLAGGL  626 (953)
T ss_pred             HHHH--hhhhhccCCCCCHHHHHHHHHHHHhccccchHHHHHHHHHhcCCCCHHHHHHHhcCchHHHHHHHHhhcccccc
Confidence            9998  77789999999999999999999999999999999999999999999999998877644444332221      


Q ss_pred             ------cccccccchhHHHHHHHHhccCCccccc-ccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCC
Q 007255          252 ------NECAGVLSVTMEDWRHARSVVGPSITRG-VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPV  324 (611)
Q Consensus       252 ------~~~~~~~~v~~ed~~~a~~~i~~~~~~~-~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~  324 (611)
                            ........++++||..+....+...... ....+|+++|+||+|++++|..+.+.+..|++|++.|.. |+++.
T Consensus       627 ~~~~~~~~~~~~~~l~~edf~kals~~~~~fs~aiGAPKIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfss-glrkR  705 (953)
T KOG0736|consen  627 QEEDEGELCAAGFLLTEEDFDKALSRLQKEFSDAIGAPKIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSS-GLRKR  705 (953)
T ss_pred             hhccccccccccceecHHHHHHHHHHHHHhhhhhcCCCCCCccchhcccCHHHHHHHHHHHhcCcccChhhhhc-ccccc
Confidence                  1223346789999999988776665544 467899999999999999999999999999999999986 88888


Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCC
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSS  404 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~  404 (611)
                      .|+|||||||||||.+|+|+|+++..+|+++.+++++++|+|++|++++.+|++|+...|||||+||+|+++++||.+++
T Consensus       706 SGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMYVGqSE~NVR~VFerAR~A~PCVIFFDELDSlAP~RG~sGD  785 (953)
T KOG0736|consen  706 SGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYVGQSEENVREVFERARSAAPCVIFFDELDSLAPNRGRSGD  785 (953)
T ss_pred             ceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHHhcchHHHHHHHHHHhhccCCeEEEeccccccCccCCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999987665


Q ss_pred             CCcchhHHHHHHHHHHhcCCC--CCCCeEEEEecCCCcccchhccCCCCccceeecCCC-CHHHHHHHHHHHhcCCCCCC
Q 007255          405 TSITVGERLLSTLLTEMDGLE--QAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPP-DLEARHEILRVHTRNMKVGD  481 (611)
Q Consensus       405 ~~~~~~~~~~~~ll~~l~~~~--~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p-~~~~r~~il~~~~~~~~~~~  481 (611)
                       +++.-+|++++||.+||++.  ....++||||||+|+.|||||+||||||+.+|++.+ |.+.+..+|+...+++.++.
T Consensus       786 -SGGVMDRVVSQLLAELDgls~~~s~~VFViGATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrkFkLde  864 (953)
T KOG0736|consen  786 -SGGVMDRVVSQLLAELDGLSDSSSQDVFVIGATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRKFKLDE  864 (953)
T ss_pred             -ccccHHHHHHHHHHHhhcccCCCCCceEEEecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHHHccCCC
Confidence             44666999999999999997  577899999999999999999999999999999976 55779999999999999999


Q ss_pred             cccHHHHHHhCC-CCCHHHHHHHHHHHHHHHHHhhccc---------------ccccHHHHHHHHhhcCCCCCHHHHHHH
Q 007255          482 DVDLRSIAEETE-LFTGAELEGLCREAGIVALREDISA---------------TAVRNRHFQTVKDSLKPALTKEEIDSY  545 (611)
Q Consensus       482 ~~~~~~la~~~~-g~s~~~i~~~~~~a~~~a~~~~~~~---------------~~i~~~~~~~~l~~~~~~~~~~~~~~~  545 (611)
                      ++++.++|+.++ .|||+|+..+|..|+..|++|.+..               -.++.+||..+..+++|+++..|+..|
T Consensus       865 dVdL~eiAk~cp~~~TGADlYsLCSdA~l~AikR~i~~ie~g~~~~~e~~~~~v~V~~eDflks~~~l~PSvS~~EL~~y  944 (953)
T KOG0736|consen  865 DVDLVEIAKKCPPNMTGADLYSLCSDAMLAAIKRTIHDIESGTISEEEQESSSVRVTMEDFLKSAKRLQPSVSEQELLRY  944 (953)
T ss_pred             CcCHHHHHhhCCcCCchhHHHHHHHHHHHHHHHHHHHHhhhccccccccCCceEEEEHHHHHHHHHhcCCcccHHHHHHH
Confidence            999999999997 8999999999999999999987521               248899999999999999999999999


Q ss_pred             HHHhhcC
Q 007255          546 SSFMKSQ  552 (611)
Q Consensus       546 ~~~~~~~  552 (611)
                      +...++.
T Consensus       945 e~vr~~f  951 (953)
T KOG0736|consen  945 EMVRAQF  951 (953)
T ss_pred             HHHHHhh
Confidence            9877654

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3.9e-66  Score=533.35  Aligned_cols=452  Identities=35%  Similarity=0.563  Sum_probs=393.0

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhC----CcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECG----AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~----~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      .+.+|||.||+|+|||.|++++++++.    +.+..++|+.+...........+..+|.++..+.    |+|+++||+|.
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~~~~----PSiIvLDdld~  505 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWYA----PSIIVLDDLDC  505 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHHHHHHHHHHHHHHHHhhC----CcEEEEcchhh
Confidence            457999999999999999999999885    4567789998876665555666777777777664    99999999999


Q ss_pred             cCCCCCCCchh----hHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHH
Q 007255          128 LCPRRDHRREQ----DVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEIL  203 (611)
Q Consensus       128 l~~~~~~~~~~----~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il  203 (611)
                      |+...+..+.+    ..++...+...+..+....   ..+.+|++.+....++|.|.++++|..++.++.|+..+|.+|+
T Consensus       506 l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~---~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL  582 (952)
T KOG0735|consen  506 LASASSNENGQDGVVSERLAAFLNQVIKIYLKRN---RKIAVIATGQELQTLNPLLVSPLLFQIVIALPAPAVTRRKEIL  582 (952)
T ss_pred             hhccCcccCCcchHHHHHHHHHHHHHHHHHHccC---cEEEEEEechhhhhcChhhcCccceEEEEecCCcchhHHHHHH
Confidence            99844322222    2233333334444433322   2479999999999999999999999999999999999999999


Q ss_pred             HHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhccCCcccccccc
Q 007255          204 KLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTV  282 (611)
Q Consensus       204 ~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~~~~~~~  282 (611)
                      ...+.+.... ...+++.++..|+||...|+..++++|...+.....    +.....++.++|.++.+.+.|...+++..
T Consensus       583 ~~~~s~~~~~~~~~dLd~ls~~TEGy~~~DL~ifVeRai~~a~leri----s~~~klltke~f~ksL~~F~P~aLR~ik~  658 (952)
T KOG0735|consen  583 TTIFSKNLSDITMDDLDFLSVKTEGYLATDLVIFVERAIHEAFLERI----SNGPKLLTKELFEKSLKDFVPLALRGIKL  658 (952)
T ss_pred             HHHHHhhhhhhhhHHHHHHHHhcCCccchhHHHHHHHHHHHHHHHHh----ccCcccchHHHHHHHHHhcChHHhhhccc
Confidence            9988766533 223466699999999999999999999998873221    11222688999999999999999999887


Q ss_pred             cCCC-cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          283 EIPK-VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       283 ~~~~-~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      ..+. +.|+||+|+.++|+.+.+.++||.+++..|...+++.+.|+|||||||||||.+|.++|...+..|+.+.+++++
T Consensus       659 ~k~tgi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL  738 (952)
T KOG0735|consen  659 VKSTGIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELL  738 (952)
T ss_pred             cccCCCCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHH
Confidence            6665 899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc
Q 007255          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA  441 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~  441 (611)
                      ++|.|.+|++++.+|..|+...|||+|+||+|+++++||-.+   .+..+|++|+||.+|||.+.-+++.|+++|.+|+.
T Consensus       739 ~KyIGaSEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhDs---TGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdl  815 (952)
T KOG0735|consen  739 SKYIGASEQNVRDLFERAQSAKPCILFFDEFDSIAPKRGHDS---TGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDL  815 (952)
T ss_pred             HHHhcccHHHHHHHHHHhhccCCeEEEeccccccCcccCCCC---CCchHHHHHHHHHhhccccccceEEEEEecCCccc
Confidence            999999999999999999999999999999999999997544   45689999999999999999999999999999999


Q ss_pred             cchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcc
Q 007255          442 IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDIS  517 (611)
Q Consensus       442 ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~  517 (611)
                      |||||+||||+|+.+++|.|+..+|.+|++..........++|++.+|..|+||||+|+..++-.|...|..+.+.
T Consensus       816 iDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~~~~vdl~~~a~~T~g~tgADlq~ll~~A~l~avh~~l~  891 (952)
T KOG0735|consen  816 IDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLKDTDVDLECLAQKTDGFTGADLQSLLYNAQLAAVHEILK  891 (952)
T ss_pred             cCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCCccccchHHHhhhcCCCchhhHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999899999999999999999999999999999999999988643

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.8e-59  Score=509.11  Aligned_cols=487  Identities=46%  Similarity=0.734  Sum_probs=438.7

Q ss_pred             hhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCC
Q 007255           38 PLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKP  117 (611)
Q Consensus        38 ~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~  117 (611)
                      |...+..+..++..++.+++++||||||||.++++++.. +.....++.......+.+.....++..|..+....    |
T Consensus         3 ~~~~~~~~~~~~~~~~~~v~~~g~~~~~~t~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~----~   77 (494)
T COG0464           3 PLKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGESELRLRELFEEAEKLA----P   77 (494)
T ss_pred             CccCHHHHHHhCCCCCCCceeeCCCCCchhHHHHHHHhc-cCcccccCcchhhhhhhhHHHHHHHHHHHHHHHhC----C
Confidence            455677888899999999999999999999999999999 66667778888888899999999999999988664    7


Q ss_pred             eEEEEccccccCCCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCH
Q 007255          118 SVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTA  196 (611)
Q Consensus       118 ~il~IDeid~l~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~  196 (611)
                      +++++|++|.+.+.... .......+..+++..++...    ... +++++.+|.+..+++++++++||...+.+..|+.
T Consensus        78 ~ii~~d~~~~~~~~~~~~~~~~~~~v~~~l~~~~d~~~----~~~-v~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (494)
T COG0464          78 SIIFIDEIDALAPKRSSDQGEVERRVVAQLLALMDGLK----RGQ-VIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDE  152 (494)
T ss_pred             CeEeechhhhcccCccccccchhhHHHHHHHHhccccc----CCc-eEEEeecCCccccChhHhCccccceeeecCCCCH
Confidence            99999999999988765 34456678889999998876    333 8888899999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhccCCcc
Q 007255          197 EERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSI  276 (611)
Q Consensus       197 ~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~  276 (611)
                      ..+.+|++..........+.+...++..+.|+.+.++..++.++......+..  ........++.+++..+...+.++ 
T Consensus       153 ~~~~ei~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~r~~--~~~~~~~~~~~~~~~~~l~~~~~~-  229 (494)
T COG0464         153 AGRLEILQIHTRLMFLGPPGTGKTLAARTVGKSGADLGALAKEAALRELRRAI--DLVGEYIGVTEDDFEEALKKVLPS-  229 (494)
T ss_pred             HHHHHHHHHHHhcCCCcccccHHHHHHhcCCccHHHHHHHHHHHHHHHHHhhh--ccCcccccccHHHHHHHHHhcCcc-
Confidence            99999999988888877788899999999999999999999999888887752  112234567888999999988887 


Q ss_pred             cccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          277 TRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       277 ~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                       +.+....+.++|++++|++.+++.+.+.+.+++.+++.|.+.+.++++++|||||||||||++|+++|++++.+|+.+.
T Consensus       230 -~~~~~~~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~  308 (494)
T COG0464         230 -RGVLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVK  308 (494)
T ss_pred             -cccccCCCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEee
Confidence             6667778899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEec
Q 007255          357 GAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAAT  436 (611)
Q Consensus       357 ~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~t  436 (611)
                      .+++.++|+|+++++++.+|..|+...||||||||+|++++.|+...+.+   ..+++++|+.+|++++...+++||++|
T Consensus       309 ~~~l~sk~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~~---~~r~~~~lL~~~d~~e~~~~v~vi~aT  385 (494)
T COG0464         309 GSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGS---GRRVVGQLLTELDGIEKAEGVLVIAAT  385 (494)
T ss_pred             CHHHhccccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCCchH---HHHHHHHHHHHhcCCCccCceEEEecC
Confidence            99999999999999999999999999999999999999999987544432   369999999999999999999999999


Q ss_pred             CCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCC--CCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHh
Q 007255          437 NRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKV--GDDVDLRSIAEETELFTGAELEGLCREAGIVALRE  514 (611)
Q Consensus       437 n~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~--~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~  514 (611)
                      |+|+.+|+|++|||||++.++||+||.++|..||+.+++....  ..++++..+++.++|||++||..+|++|...++++
T Consensus       386 N~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~ea~~~~~~~  465 (494)
T COG0464         386 NRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALRE  465 (494)
T ss_pred             CCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999986554  47899999999999999999999999999999988


Q ss_pred             hcccccccHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 007255          515 DISATAVRNRHFQTVKDSLKPALTKEEIDSYSSF  548 (611)
Q Consensus       515 ~~~~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~  548 (611)
                      .. ...++.+||..++...+|+++      |++|
T Consensus       466 ~~-~~~~~~~~~~~a~~~~~p~~~------~~~~  492 (494)
T COG0464         466 AR-RREVTLDDFLDALKKIKPSVT------YEEW  492 (494)
T ss_pred             hc-cCCccHHHHHHHHHhcCCCCC------hhhc
Confidence            75 567999999999999999876      6666

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.8e-56  Score=432.24  Aligned_cols=253  Identities=45%  Similarity=0.738  Sum_probs=243.0

Q ss_pred             cccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhh
Q 007255          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (611)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~  360 (611)
                      ..+.|.++|++|+|+++.++.+++.++.|+++|+.|.++|+.||+|+|||||||||||+||+|+|+..++.|+.+.+++|
T Consensus       142 v~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSEl  221 (406)
T COG1222         142 VEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSEL  221 (406)
T ss_pred             eccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHH
Confidence            34568899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCc
Q 007255          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH  440 (611)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~  440 (611)
                      ..+|.|++...++.+|..|+...||||||||||++.++|...+.+.+..-.|.+-+||++|||+.+.+++-||+|||+++
T Consensus       222 VqKYiGEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D  301 (406)
T COG1222         222 VQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPD  301 (406)
T ss_pred             HHHHhccchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcc
Confidence            99999999999999999999999999999999999999987777777777888999999999999999999999999999


Q ss_pred             ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccccc
Q 007255          441 AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATA  520 (611)
Q Consensus       441 ~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~  520 (611)
                      .|||||+||||||++|+||+||.+.|.+||++|.+++.+..++||+.||+.++|+||+||+++|.+|++.|+++.  ...
T Consensus       302 ~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e~la~~~~g~sGAdlkaictEAGm~AiR~~--R~~  379 (406)
T COG1222         302 ILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICTEAGMFAIRER--RDE  379 (406)
T ss_pred             ccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCHHHHHHhcCCCchHHHHHHHHHHhHHHHHhc--cCe
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999985  778


Q ss_pred             ccHHHHHHHHhhcCC
Q 007255          521 VRNRHFQTVKDSLKP  535 (611)
Q Consensus       521 i~~~~~~~~l~~~~~  535 (611)
                      ++.+||..|.+++..
T Consensus       380 Vt~~DF~~Av~KV~~  394 (406)
T COG1222         380 VTMEDFLKAVEKVVK  394 (406)
T ss_pred             ecHHHHHHHHHHHHh
Confidence            999999999987744

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.6e-51  Score=396.54  Aligned_cols=270  Identities=39%  Similarity=0.683  Sum_probs=249.9

Q ss_pred             ccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecc
Q 007255          278 RGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (611)
Q Consensus       278 ~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~  357 (611)
                      +++...-|.+.|+||.|++++|+-|++++..|+..|+.|... .+|.+|+|++||||||||+||+|+|.|++..||.++.
T Consensus       200 rdIl~~np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~Gi-rrPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSs  278 (491)
T KOG0738|consen  200 RDILQRNPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGI-RRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSS  278 (491)
T ss_pred             HHHhccCCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhc-ccccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEech
Confidence            344455688999999999999999999999999999999864 4677999999999999999999999999999999999


Q ss_pred             hhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC----CCCeEEE
Q 007255          358 AELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ----AKGILVL  433 (611)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~----~~~~~vI  433 (611)
                      +.+.++|.|++|+.++-+|+.|+.+.|++|||||||+|++.||..+  ....++|++++||.+|||+..    ...|+|+
T Consensus       279 stltSKwRGeSEKlvRlLFemARfyAPStIFiDEIDslcs~RG~s~--EHEaSRRvKsELLvQmDG~~~t~e~~k~VmVL  356 (491)
T KOG0738|consen  279 STLTSKWRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSQRGGSS--EHEASRRVKSELLVQMDGVQGTLENSKVVMVL  356 (491)
T ss_pred             hhhhhhhccchHHHHHHHHHHHHHhCCceeehhhHHHHHhcCCCcc--chhHHHHHHHHHHHHhhccccccccceeEEEE
Confidence            9999999999999999999999999999999999999999998654  456789999999999999853    2348999


Q ss_pred             EecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 007255          434 AATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALR  513 (611)
Q Consensus       434 ~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~  513 (611)
                      ++||.||+||.||+|  ||++.|++|+|+.+.|..++++.++.....++++++.|++.++||||+||.++|++|.+.+++
T Consensus       357 AATN~PWdiDEAlrR--RlEKRIyIPLP~~~~R~~Li~~~l~~~~~~~~~~~~~lae~~eGySGaDI~nvCreAsm~~mR  434 (491)
T KOG0738|consen  357 AATNFPWDIDEALRR--RLEKRIYIPLPDAEARSALIKILLRSVELDDPVNLEDLAERSEGYSGADITNVCREASMMAMR  434 (491)
T ss_pred             eccCCCcchHHHHHH--HHhhheeeeCCCHHHHHHHHHHhhccccCCCCccHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Confidence            999999999999999  999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhc---------------ccccccHHHHHHHHhhcCCCCCHHHHHHHHHHhhcC
Q 007255          514 EDI---------------SATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKSQ  552 (611)
Q Consensus       514 ~~~---------------~~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  552 (611)
                      |.+               .+.|++..||..|+++++|+++..++++|++|+...
T Consensus       435 R~i~g~~~~ei~~lakE~~~~pv~~~Dfe~Al~~v~pSvs~~d~~k~ekW~~ef  488 (491)
T KOG0738|consen  435 RKIAGLTPREIRQLAKEEPKMPVTNEDFEEALRKVRPSVSAADLEKYEKWMDEF  488 (491)
T ss_pred             HHHhcCCcHHhhhhhhhccccccchhhHHHHHHHcCcCCCHHHHHHHHHHHHHh
Confidence            765               235799999999999999999999999999999754

>CHL00195 ycf46 Ycf46; Provisional

Probab=100.00  E-value=1.8e-45  Score=388.66  Aligned_cols=395  Identities=22%  Similarity=0.353  Sum_probs=308.7

Q ss_pred             CCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCC
Q 007255          116 KPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPT  195 (611)
Q Consensus       116 ~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~  195 (611)
                      .|+|+++.|+|.++...        .+.+.|.++.......   + +.+|+.+.+  -.+++.|.+   +...+.+|.|+
T Consensus        81 ~~~~~vl~d~h~~~~~~--------~~~r~l~~l~~~~~~~---~-~~~i~~~~~--~~~p~el~~---~~~~~~~~lP~  143 (489)
T CHL00195         81 TPALFLLKDFNRFLNDI--------SISRKLRNLSRILKTQ---P-KTIIIIASE--LNIPKELKD---LITVLEFPLPT  143 (489)
T ss_pred             CCcEEEEecchhhhcch--------HHHHHHHHHHHHHHhC---C-CEEEEEcCC--CCCCHHHHh---ceeEEeecCcC
Confidence            37899999999887321        2334444433322221   1 234444433  457888875   44578999999


Q ss_pred             HHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHH----HHHHHh
Q 007255          196 AEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMED----WRHARS  270 (611)
Q Consensus       196 ~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed----~~~a~~  270 (611)
                      .+++.++++.+....... ....++.++..+.|++..+++.++..+....    ..         ++.++    +..-.+
T Consensus       144 ~~ei~~~l~~~~~~~~~~~~~~~~~~l~~~~~gls~~~~~~~~~~~~~~~----~~---------~~~~~~~~i~~~k~q  210 (489)
T CHL00195        144 ESEIKKELTRLIKSLNIKIDSELLENLTRACQGLSLERIRRVLSKIIATY----KT---------IDENSIPLILEEKKQ  210 (489)
T ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHHc----CC---------CChhhHHHHHHHHHH
Confidence            999999998877644333 3346899999999999999998888754321    10         11111    111111


Q ss_pred             ccCCcccccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC
Q 007255          271 VVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA  350 (611)
Q Consensus       271 ~i~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~  350 (611)
                      .+...  .......+..+|++|+|++.+|+.+.+....   +.....++|+++++|+|||||||||||++|+++|++++.
T Consensus       211 ~~~~~--~~le~~~~~~~~~dvgGl~~lK~~l~~~~~~---~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~  285 (489)
T CHL00195        211 IISQT--EILEFYSVNEKISDIGGLDNLKDWLKKRSTS---FSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQL  285 (489)
T ss_pred             HHhhh--ccccccCCCCCHHHhcCHHHHHHHHHHHHHH---hhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCC
Confidence            11111  1122233567899999999999998875432   234556789999999999999999999999999999999


Q ss_pred             cEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCe
Q 007255          351 SFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGI  430 (611)
Q Consensus       351 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  430 (611)
                      +++.++++++.++|+|+++.+++.+|+.++..+||||||||+|.++.++...+  ......+++.+|+..|+  .....+
T Consensus       286 ~~~~l~~~~l~~~~vGese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~--d~~~~~rvl~~lL~~l~--~~~~~V  361 (489)
T CHL00195        286 PLLRLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKG--DSGTTNRVLATFITWLS--EKKSPV  361 (489)
T ss_pred             CEEEEEhHHhcccccChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCC--CchHHHHHHHHHHHHHh--cCCCce
Confidence            99999999999999999999999999999999999999999999987654322  23456789999999998  356789


Q ss_pred             EEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC--CcccHHHHHHhCCCCCHHHHHHHHHHHH
Q 007255          431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG--DDVDLRSIAEETELFTGAELEGLCREAG  508 (611)
Q Consensus       431 ~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~--~~~~~~~la~~~~g~s~~~i~~~~~~a~  508 (611)
                      +||+|||+|+.+|++++|+||||++++++.|+.++|.+||+.++++....  .+.+++.||+.|+||||+||+++|.+|+
T Consensus       362 ~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~lv~eA~  441 (489)
T CHL00195        362 FVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAM  441 (489)
T ss_pred             EEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999886543  4788999999999999999999999999


Q ss_pred             HHHHHhhcccccccHHHHHHHHhhcCCC--CCHHHHHHHHHHhhcC
Q 007255          509 IVALREDISATAVRNRHFQTVKDSLKPA--LTKEEIDSYSSFMKSQ  552 (611)
Q Consensus       509 ~~a~~~~~~~~~i~~~~~~~~l~~~~~~--~~~~~~~~~~~~~~~~  552 (611)
                      ..|..+   .++++.+||..++..+.|.  ...++++.+++|....
T Consensus       442 ~~A~~~---~~~lt~~dl~~a~~~~~Pls~~~~e~i~~~~~Wa~~~  484 (489)
T CHL00195        442 YIAFYE---KREFTTDDILLALKQFIPLAQTEKEQIEALQNWASSG  484 (489)
T ss_pred             HHHHHc---CCCcCHHHHHHHHHhcCCCcccCHHHHHHHHHHHHcC
Confidence            988876   3779999999999999996  5788899999998653

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.7e-46  Score=373.68  Aligned_cols=260  Identities=41%  Similarity=0.657  Sum_probs=237.4

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~  364 (611)
                      .+++|+|+.|.+++|+.|+|.+.+ ++.|..|.++|.+-|+|+||+||||||||+||+|+|.|.+.+||..++++|-..|
T Consensus       299 ~nv~F~dVkG~DEAK~ELeEiVef-LkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~  377 (752)
T KOG0734|consen  299 KNVTFEDVKGVDEAKQELEEIVEF-LKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMF  377 (752)
T ss_pred             cccccccccChHHHHHHHHHHHHH-hcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhh
Confidence            467899999999999999999986 9999999999999999999999999999999999999999999999999999999


Q ss_pred             ccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccch
Q 007255          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDA  444 (611)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~  444 (611)
                      +|....+++.+|..|+...||||||||||.+.++|....   ....++.+|+||.+|||+.++.+++|||+||.|+.||+
T Consensus       378 VGvGArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~---~~y~kqTlNQLLvEmDGF~qNeGiIvigATNfpe~LD~  454 (752)
T KOG0734|consen  378 VGVGARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSD---QHYAKQTLNQLLVEMDGFKQNEGIIVIGATNFPEALDK  454 (752)
T ss_pred             hcccHHHHHHHHHHHHhcCCeEEEEechhhhcccCCccH---HHHHHHHHHHHHHHhcCcCcCCceEEEeccCChhhhhH
Confidence            999999999999999999999999999999999885432   23678899999999999999999999999999999999


Q ss_pred             hccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHH
Q 007255          445 ALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNR  524 (611)
Q Consensus       445 al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~  524 (611)
                      ||.||||||.+|.+|.||..-|.+||+.+++++....++|+.-+|+-|.||||+|+.++++.|+..|....  +..++..
T Consensus       455 AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki~~~~~VD~~iiARGT~GFsGAdLaNlVNqAAlkAa~dg--a~~VtM~  532 (752)
T KOG0734|consen  455 ALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKIPLDEDVDPKIIARGTPGFSGADLANLVNQAALKAAVDG--AEMVTMK  532 (752)
T ss_pred             HhcCCCccceeEecCCCCcccHHHHHHHHHhcCCcccCCCHhHhccCCCCCchHHHHHHHHHHHHHHHhcC--cccccHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999888775  6678888


Q ss_pred             HHHHHHhhc------CCCCCHHHHHHHHHHhh
Q 007255          525 HFQTVKDSL------KPALTKEEIDSYSSFMK  550 (611)
Q Consensus       525 ~~~~~l~~~------~~~~~~~~~~~~~~~~~  550 (611)
                      |+..+-+++      +..+-.++-.+.-.|..
T Consensus       533 ~LE~akDrIlMG~ERks~~i~~eak~~TAyHE  564 (752)
T KOG0734|consen  533 HLEFAKDRILMGPERKSMVIDEEAKKITAYHE  564 (752)
T ss_pred             HHhhhhhheeecccccccccChhhhhhhhhhc
Confidence            888888776      12233444455555554

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.3e-45  Score=336.77  Aligned_cols=257  Identities=41%  Similarity=0.687  Sum_probs=241.9

Q ss_pred             cccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhh
Q 007255          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (611)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~  360 (611)
                      ....|..+++-++|++...+.+.+.++.|.+||+.|..+|+..|+|+|||||||||||.+|+++|....|.|+.++++++
T Consensus       138 VeKvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgsel  217 (404)
T KOG0728|consen  138 VEKVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSEL  217 (404)
T ss_pred             hhhCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHH
Confidence            34568889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCc
Q 007255          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH  440 (611)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~  440 (611)
                      ..+|.|+....++.+|-.|+...|+|+|+||||++.+.|..++++.+....+..-+||++|||++...++-||++||+.+
T Consensus       218 vqk~igegsrmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnrid  297 (404)
T KOG0728|consen  218 VQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRID  297 (404)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccc
Confidence            99999999999999999999999999999999999999987777766667788889999999999999999999999999


Q ss_pred             ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccccc
Q 007255          441 AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATA  520 (611)
Q Consensus       441 ~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~  520 (611)
                      -+|||++||||+|+.|.||+|+.+.|.+|++++.+++.+...+++..+|+...|.||++++.+|.+|.++|+++.  .-.
T Consensus       298 ild~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl~rgi~l~kiaekm~gasgaevk~vcteagm~alrer--rvh  375 (404)
T KOG0728|consen  298 ILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLTRGINLRKIAEKMPGASGAEVKGVCTEAGMYALRER--RVH  375 (404)
T ss_pred             cccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhchhcccCHHHHHHhCCCCccchhhhhhhhhhHHHHHHh--hcc
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999885  567


Q ss_pred             ccHHHHHHHHhhcCCCCCH
Q 007255          521 VRNRHFQTVKDSLKPALTK  539 (611)
Q Consensus       521 i~~~~~~~~l~~~~~~~~~  539 (611)
                      ++++||.-|..++-...++
T Consensus       376 vtqedfemav~kvm~k~~e  394 (404)
T KOG0728|consen  376 VTQEDFEMAVAKVMQKDSE  394 (404)
T ss_pred             ccHHHHHHHHHHHHhcccc
Confidence            9999999998776443333

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3e-46  Score=350.65  Aligned_cols=271  Identities=34%  Similarity=0.591  Sum_probs=245.2

Q ss_pred             ccccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          276 ITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       276 ~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ....+..+.|++.|+|+.|++.+|+.|++++..|+++|+.|.. +..|.+|+||||||||||+.||+|+|.+.+..||++
T Consensus       119 L~sAIv~EKPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtG-kR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSv  197 (439)
T KOG0739|consen  119 LNSAIVREKPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTG-KRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSV  197 (439)
T ss_pred             hhhhhhccCCCCchhhhccchhHHHHHHhheeecccchhhhcC-CCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEe
Confidence            3445566789999999999999999999999999999999985 446779999999999999999999999999999999


Q ss_pred             cchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-CCCCeEEEE
Q 007255          356 SGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-QAKGILVLA  434 (611)
Q Consensus       356 ~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-~~~~~~vI~  434 (611)
                      +.+++.++|.|++++.++++|..|+...|+||||||||.+++.|+..   ..+..+|++.+||.+|.|+. ..++++|+|
T Consensus       198 SSSDLvSKWmGESEkLVknLFemARe~kPSIIFiDEiDslcg~r~en---EseasRRIKTEfLVQMqGVG~d~~gvLVLg  274 (439)
T KOG0739|consen  198 SSSDLVSKWMGESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSEN---ESEASRRIKTEFLVQMQGVGNDNDGVLVLG  274 (439)
T ss_pred             ehHHHHHHHhccHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCC---chHHHHHHHHHHHHhhhccccCCCceEEEe
Confidence            99999999999999999999999999999999999999999888643   34567999999999999984 567899999


Q ss_pred             ecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 007255          435 ATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALR  513 (611)
Q Consensus       435 ~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~  513 (611)
                      +||-||.||.|++|  ||++.||+|+|+...|..+++.++...+.. .+.|+..|+++|+||||+||.-+|+.|.+..++
T Consensus       275 ATNiPw~LDsAIRR--RFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeGySGsDisivVrDalmePvR  352 (439)
T KOG0739|consen  275 ATNIPWVLDSAIRR--RFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEGYSGSDISIVVRDALMEPVR  352 (439)
T ss_pred             cCCCchhHHHHHHH--HhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCCCCcCceEEEehhhhhhhHH
Confidence            99999999999999  999999999999999999999998877654 567899999999999999999999999999887


Q ss_pred             hhcc--------------------------------------------cccccHHHHHHHHhhcCCCCCHHHHHHHHHHh
Q 007255          514 EDIS--------------------------------------------ATAVRNRHFQTVKDSLKPALTKEEIDSYSSFM  549 (611)
Q Consensus       514 ~~~~--------------------------------------------~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~~  549 (611)
                      +-.+                                            ..+++..||..++.+.+|.+...++.+.++|.
T Consensus       353 kvqsAthFk~v~~~s~~~~~~~lltpcspgd~ga~em~w~dv~~dkl~eP~vt~~D~~k~l~~tkPTvn~~Dl~k~~~Ft  432 (439)
T KOG0739|consen  353 KVQSATHFKKVSGPSNPSEVDDLLTPCSPGDPGAIEMSWMDVPADKLLEPPVTMRDFLKSLSRTKPTVNEDDLLKHEKFT  432 (439)
T ss_pred             HhhhhhhhhccCCCCChhhhccccCCCCCCCcchhhhhhccCCHhhccCCCccHHHHHHHHhhcCCCCCHHHHHHHHHHH
Confidence            7431                                            12588999999999999999999999988887


Q ss_pred             hcC
Q 007255          550 KSQ  552 (611)
Q Consensus       550 ~~~  552 (611)
                      +..
T Consensus       433 ~dF  435 (439)
T KOG0739|consen  433 EDF  435 (439)
T ss_pred             Hhh
Confidence            643

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.3e-44  Score=350.07  Aligned_cols=255  Identities=38%  Similarity=0.621  Sum_probs=227.7

Q ss_pred             ccccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255            4 KGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus         4 ~~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .+.+.+++++.+   ++|+|+++++++|++.++.|+.+|+.|.++|+.||++||||||||||||.+|+++|++.++.|+.
T Consensus       139 ~M~v~e~PdvtY---~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIr  215 (406)
T COG1222         139 VMEVEEKPDVTY---EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIR  215 (406)
T ss_pred             eeeeccCCCCCh---hhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEE
Confidence            345666666666   89999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCC-CCCchhhHHHHHHHHHHHhcCCCCCCCCCc
Q 007255           84 ISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRREQDVRIASQLFTLMDSNKPSKTSVPH  162 (611)
Q Consensus        84 v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~-~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~  162 (611)
                      +..+++...|.|+..+.++++|..|....    ||||||||||.+...+ +.+...+.+++..++.++.+... +.+.++
T Consensus       216 vvgSElVqKYiGEGaRlVRelF~lAreka----PsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDG-FD~~~n  290 (406)
T COG1222         216 VVGSELVQKYIGEGARLVRELFELAREKA----PSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDG-FDPRGN  290 (406)
T ss_pred             eccHHHHHHHhccchHHHHHHHHHHhhcC----CeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccC-CCCCCC
Confidence            99999999999999999999999998765    9999999999999876 34445566777766655544322 123458


Q ss_pred             EEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHH
Q 007255          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATM  242 (611)
Q Consensus       163 v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~  242 (611)
                      |-||++||+++.|||+|+|||||++.|+||.|+.+.|.+||+.+..+..+..+++++.++..++|++|.+++++|.+|..
T Consensus       291 vKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e~la~~~~g~sGAdlkaictEAGm  370 (406)
T COG1222         291 VKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICTEAGM  370 (406)
T ss_pred             eEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCHHHHHHhcCCCchHHHHHHHHHHhH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcccccccccccchhHHHHHHHHhccCC
Q 007255          243 SAVKRSSDANECAGVLSVTMEDWRHARSVVGP  274 (611)
Q Consensus       243 ~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~  274 (611)
                      .|++....        .++++||..|..++..
T Consensus       371 ~AiR~~R~--------~Vt~~DF~~Av~KV~~  394 (406)
T COG1222         371 FAIRERRD--------EVTMEDFLKAVEKVVK  394 (406)
T ss_pred             HHHHhccC--------eecHHHHHHHHHHHHh
Confidence            99986543        6899999999876543

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.3e-44  Score=332.21  Aligned_cols=250  Identities=38%  Similarity=0.683  Sum_probs=236.2

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      -+.|.+++.||+|++-.|+.+++.++.|+.+.+.+++.|+.||+|+|+|||||||||++|+|+|+...+.|+.+.++++.
T Consensus       147 ~ekpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefv  226 (408)
T KOG0727|consen  147 DEKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFV  226 (408)
T ss_pred             CCCCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHH
Confidence            35688999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc
Q 007255          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA  441 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~  441 (611)
                      .+|.|+....++.+|..|+...|+|+||||+|.++-+|-....+.+....+++-+||++|||+....++-||++||+.+.
T Consensus       227 qkylgegprmvrdvfrlakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~nvkvimatnradt  306 (408)
T KOG0727|consen  227 QKYLGEGPRMVRDVFRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTNVKVIMATNRADT  306 (408)
T ss_pred             HHHhccCcHHHHHHHHHHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccceEEEEecCcccc
Confidence            99999999999999999999999999999999999998666666666778899999999999999999999999999999


Q ss_pred             cchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccc
Q 007255          442 IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAV  521 (611)
Q Consensus       442 ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i  521 (611)
                      +|||++||||+|+.|+||+||..++.-++.....++.+.+++|++.+..+-+-.|+++|..+|++|.+.|.++.  .-.+
T Consensus       307 ldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls~~vdle~~v~rpdkis~adi~aicqeagm~avr~n--ryvv  384 (408)
T KOG0727|consen  307 LDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVDLEDLVARPDKISGADINAICQEAGMLAVREN--RYVV  384 (408)
T ss_pred             cCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCCcccCHHHHhcCccccchhhHHHHHHHHhHHHHHhc--ceee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999885  5667


Q ss_pred             cHHHHHHHHhhc
Q 007255          522 RNRHFQTVKDSL  533 (611)
Q Consensus       522 ~~~~~~~~l~~~  533 (611)
                      ...||..+....
T Consensus       385 l~kd~e~ay~~~  396 (408)
T KOG0727|consen  385 LQKDFEKAYKTV  396 (408)
T ss_pred             eHHHHHHHHHhh
Confidence            888888887543

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.4e-44  Score=368.78  Aligned_cols=231  Identities=42%  Similarity=0.688  Sum_probs=219.7

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ..+.++|++|+|++.....|.+.+.. +++|+.|..+|+.|++|+|||||||||||+||+|+|++++.+|+.+++.++.+
T Consensus       183 ~~snv~f~diGG~d~~~~el~~li~~-i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivS  261 (802)
T KOG0733|consen  183 PESNVSFSDIGGLDKTLAELCELIIH-IKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVS  261 (802)
T ss_pred             CCCCcchhhccChHHHHHHHHHHHHH-hcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhc
Confidence            34467899999999999999999988 99999999999999999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCC----CCeEEEEecCC
Q 007255          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA----KGILVLAATNR  438 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~----~~~~vI~~tn~  438 (611)
                      .+.|++|+.++.+|+.|+...|||+||||||.|.++|..   .+.++.+|++.+||+.||++...    +.|+||||||+
T Consensus       262 GvSGESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~---aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnR  338 (802)
T KOG0733|consen  262 GVSGESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREE---AQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATNR  338 (802)
T ss_pred             ccCcccHHHHHHHHHHHhccCCeEEEeecccccccchhh---HHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCCC
Confidence            999999999999999999999999999999999999864   44577899999999999998544    67999999999


Q ss_pred             CcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcc
Q 007255          439 PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDIS  517 (611)
Q Consensus       439 ~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~  517 (611)
                      |+.+||||+|+||||+.|.+..|+..+|..||+..++++.+..++|+..||+.|.||-|+|+.++|.+|+..|++|.+.
T Consensus       339 PDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~d~~qlA~lTPGfVGADL~AL~~~Aa~vAikR~ld  417 (802)
T KOG0733|consen  339 PDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDFDFKQLAKLTPGFVGADLMALCREAAFVAIKRILD  417 (802)
T ss_pred             CcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCcCHHHHHhcCCCccchhHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999999764

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3.1e-44  Score=331.17  Aligned_cols=249  Identities=39%  Similarity=0.674  Sum_probs=235.3

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      .|...++||+|++...+.|.+++..|+.|++.|.++|++||+|+|+|||||||||.+|+|.|...+..|..+.++.+...
T Consensus       165 kPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLVQM  244 (424)
T KOG0652|consen  165 KPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLVQM  244 (424)
T ss_pred             CCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHHhh
Confidence            46778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccc
Q 007255          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAID  443 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld  443 (611)
                      |.|+..+.++..|..|+...|+||||||+|.+..+|..+....+....|..-+||++|||+.+.+++-||++||+.+-+|
T Consensus       245 fIGdGAkLVRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKviAATNRvDiLD  324 (424)
T KOG0652|consen  245 FIGDGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVIAATNRVDILD  324 (424)
T ss_pred             hhcchHHHHHHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEEeecccccccC
Confidence            99999999999999999999999999999999988866555555556677788999999999999999999999999999


Q ss_pred             hhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccH
Q 007255          444 AALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRN  523 (611)
Q Consensus       444 ~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~  523 (611)
                      ||++|+||+|+.|.||.|+.+.|.+|++++.+++.+.+++++++||+-+++|.|++.+++|-+|.+.|+++.  +..++.
T Consensus       325 PALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~DvNfeELaRsTddFNGAQcKAVcVEAGMiALRr~--atev~h  402 (424)
T KOG0652|consen  325 PALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVSDDVNFEELARSTDDFNGAQCKAVCVEAGMIALRRG--ATEVTH  402 (424)
T ss_pred             HHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCCCCCCHHHHhhcccccCchhheeeehhhhHHHHhcc--cccccH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999986  677899


Q ss_pred             HHHHHHHhhcC
Q 007255          524 RHFQTVKDSLK  534 (611)
Q Consensus       524 ~~~~~~l~~~~  534 (611)
                      +||.+.+..++
T Consensus       403 eDfmegI~eVq  413 (424)
T KOG0652|consen  403 EDFMEGILEVQ  413 (424)
T ss_pred             HHHHHHHHHHH
Confidence            99999886654

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.1e-44  Score=337.18  Aligned_cols=249  Identities=37%  Similarity=0.666  Sum_probs=234.3

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      .-|..+|.||+|++...+.+.+.++.|+.||+.+..+|+.||+|++|||+||||||.||+|+|+...+.|+.+-++++..
T Consensus       178 KaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQ  257 (440)
T KOG0726|consen  178 KAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQ  257 (440)
T ss_pred             cCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHH
Confidence            34778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      +|.|+..+.++++|+.|...+|+|+||||||.+..+|=.++++....-.|..-+||+++||+...+.+-||++||+.+.+
T Consensus       258 kylGdGpklvRqlF~vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFdsrgDvKvimATnrie~L  337 (440)
T KOG0726|consen  258 KYLGDGPKLVRELFRVAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIMATNRIETL  337 (440)
T ss_pred             HHhccchHHHHHHHHHHHhcCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCccccCCeEEEEeccccccc
Confidence            99999999999999999999999999999999999986666665555566677899999999999999999999999999


Q ss_pred             chhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccccccc
Q 007255          443 DAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVR  522 (611)
Q Consensus       443 d~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~  522 (611)
                      ||||.||||+|+.|.||.||...+..||+++..++.+..+++++.+....+.+||+||+++|.+|...|++++  ...++
T Consensus       338 DPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs~Mtl~~dVnle~li~~kddlSGAdIkAictEaGllAlRer--Rm~vt  415 (440)
T KOG0726|consen  338 DPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTSRMTLAEDVNLEELIMTKDDLSGADIKAICTEAGLLALRER--RMKVT  415 (440)
T ss_pred             CHhhcCCCccccccccCCCchhhhceeEEEeecccchhccccHHHHhhcccccccccHHHHHHHHhHHHHHHH--Hhhcc
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999886  56789


Q ss_pred             HHHHHHHHhhc
Q 007255          523 NRHFQTVKDSL  533 (611)
Q Consensus       523 ~~~~~~~l~~~  533 (611)
                      .+||..+..++
T Consensus       416 ~~DF~ka~e~V  426 (440)
T KOG0726|consen  416 MEDFKKAKEKV  426 (440)
T ss_pred             HHHHHHHHHHH
Confidence            99999887654

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=5.4e-44  Score=330.53  Aligned_cols=260  Identities=37%  Similarity=0.641  Sum_probs=241.1

Q ss_pred             cCCcccccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc
Q 007255          272 VGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS  351 (611)
Q Consensus       272 i~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~  351 (611)
                      +.|+.+.....+.|.++++|++|..+..+.+++.++.|+.||+.|-++|+.||+|+|+|||||||||.+|+|+|+..++.
T Consensus       159 idpsvtmm~veekpdvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdac  238 (435)
T KOG0729|consen  159 IDPSVTMMQVEEKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDAC  238 (435)
T ss_pred             CCCceeEEEeecCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCce
Confidence            44555555556789999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeE
Q 007255          352 FFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGIL  431 (611)
Q Consensus       352 ~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  431 (611)
                      |+.+-++++..+|+|+....++.+|..|+....||||+||||.+.+.|-..+.+.+....+..-+|+++|||+.+.+++-
T Consensus       239 firvigselvqkyvgegarmvrelf~martkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnik  318 (435)
T KOG0729|consen  239 FIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIK  318 (435)
T ss_pred             EEeehhHHHHHHHhhhhHHHHHHHHHHhcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeE
Confidence            99999999999999999999999999999999999999999999998865555555556677788899999999999999


Q ss_pred             EEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 007255          432 VLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVA  511 (611)
Q Consensus       432 vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a  511 (611)
                      |+++||+|+.+||||+||||+|+.++|.+||.+.|.+|++++.+.+.+..++-++-||..|.+-||++|+.+|.+|.+.|
T Consensus       319 vlmatnrpdtldpallrpgrldrkvef~lpdlegrt~i~kihaksmsverdir~ellarlcpnstgaeirsvcteagmfa  398 (435)
T KOG0729|consen  319 VLMATNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFA  398 (435)
T ss_pred             EEeecCCCCCcCHhhcCCcccccceeccCCcccccceeEEEeccccccccchhHHHHHhhCCCCcchHHHHHHHHhhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhcccccccHHHHHHHHhhc
Q 007255          512 LREDISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       512 ~~~~~~~~~i~~~~~~~~l~~~  533 (611)
                      ++..  .+..+..||..|..++
T Consensus       399 irar--rk~atekdfl~av~kv  418 (435)
T KOG0729|consen  399 IRAR--RKVATEKDFLDAVNKV  418 (435)
T ss_pred             HHHH--hhhhhHHHHHHHHHHH
Confidence            8765  5677889999998765

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3.9e-43  Score=352.35  Aligned_cols=431  Identities=29%  Similarity=0.443  Sum_probs=329.6

Q ss_pred             ccCCcHHHHHHH-HHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC-cEEEEcccccccccccch
Q 007255           20 AIGGNRAAVEAL-RELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-HLTVISPHSVHKAHVGES   97 (611)
Q Consensus        20 ~i~G~~~~~~~l-~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~-~~~~v~~~~~~~~~~~~~   97 (611)
                      .|+|++.....+ +++...-+..|+...++|+++-+++|||||||||||.+||.+.+.++. +--.|+..++.+.|.|++
T Consensus       222 GIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPeIL~KYVGeS  301 (744)
T KOG0741|consen  222 GIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPEILNKYVGES  301 (744)
T ss_pred             ccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcHHHHHHhhccc
Confidence            468998876665 677777788889999999999999999999999999999999999975 456788999999999999


Q ss_pred             HHHHHHHHHHHHhhhhc----CCCeEEEEccccccCCCCCC---CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeec
Q 007255           98 EKALREAFSQASSHALS----GKPSVVFIDEIDALCPRRDH---RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (611)
Q Consensus        98 ~~~l~~~f~~~~~~~~~----~~~~il~IDeid~l~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn  170 (611)
                      +..++.+|..|......    ..-.||++||||.+|..+++   +......++++|+.-||+...    ..++++|+.||
T Consensus       302 E~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeq----LNNILVIGMTN  377 (744)
T KOG0741|consen  302 EENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQ----LNNILVIGMTN  377 (744)
T ss_pred             HHHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccHHh----hhcEEEEeccC
Confidence            99999999998764432    22359999999999988753   234566899999999997543    34799999999


Q ss_pred             CcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCC----CCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhh
Q 007255          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV----PLDANVDLEAIATSCNGYVGADLEALCREATMSAVK  246 (611)
Q Consensus       171 ~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~----~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~  246 (611)
                      +.+.+|++|+|||||...+++..||+.-|.+|++.+.+..    .++.+++++++|..|..|+|.+|+.+++.|...|+.
T Consensus       378 R~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~rMre~~~l~~dVdl~elA~lTKNfSGAEleglVksA~S~A~n  457 (744)
T KOG0741|consen  378 RKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKIHTKRMRENNKLSADVDLKELAALTKNFSGAELEGLVKSAQSFAMN  457 (744)
T ss_pred             chhhHHHHhcCCCceEEEEEEeCCCccCceEEEEhhhhhhhhcCCCCCCcCHHHHHHHhcCCchhHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999877654    367889999999999999999999999999999998


Q ss_pred             hccccc-------ccccccchhHHHHHHHHhccCCccccccc-cc--C--CCccccccc--chhHHHHHHHHHhhccCCC
Q 007255          247 RSSDAN-------ECAGVLSVTMEDWRHARSVVGPSITRGVT-VE--I--PKVTWEDIG--GLRDLKKKLQQAVEWPIKH  312 (611)
Q Consensus       247 r~~~~~-------~~~~~~~v~~ed~~~a~~~i~~~~~~~~~-~~--~--~~~~~~~i~--g~~~~k~~l~~~~~~~~~~  312 (611)
                      |+....       .....+.++++||..+...++|....... ..  .  --+.|..-+  ..++-+..+++        
T Consensus       458 R~vk~~~~~~~~~~~~e~lkV~r~DFl~aL~dVkPAFG~see~l~~~~~~Gmi~~g~~v~~il~~G~llv~q--------  529 (744)
T KOG0741|consen  458 RHVKAGGKVEVDPVAIENLKVTRGDFLNALEDVKPAFGISEEDLERFVMNGMINWGPPVTRILDDGKLLVQQ--------  529 (744)
T ss_pred             hhhccCcceecCchhhhheeecHHHHHHHHHhcCcccCCCHHHHHHHHhCCceeecccHHHHHhhHHHHHHH--------
Confidence            875542       34456789999999999999887653211 00  0  001121110  01111111111        


Q ss_pred             hhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee-cchhhccccccchHHHHHHHHHHHHhcCCcEEEEcc
Q 007255          313 STAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL-SGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDE  391 (611)
Q Consensus       313 ~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDe  391 (611)
                         .+.....+-.++||+||||+|||+||..+|...+.||+.+ ++.++.+..-...+..++.+|+.|+...-+||++|+
T Consensus       530 ---vk~s~~s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDd  606 (744)
T KOG0741|consen  530 ---VKNSERSPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDD  606 (744)
T ss_pred             ---hhccccCcceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcc
Confidence               1111234456799999999999999999999999999865 566665544444567899999999999989999999


Q ss_pred             cccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCC-eEEEEecCCCccc-chhccCCCCccceeecCCCCH-HHHHH
Q 007255          392 ADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKG-ILVLAATNRPHAI-DAALMRPGRFDLVLYVPPPDL-EARHE  468 (611)
Q Consensus       392 id~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~-~~vI~~tn~~~~l-d~al~r~gRf~~~i~~~~p~~-~~r~~  468 (611)
                      ++.|..-..    -.-..++.++.+|+..+....+.++ .+|++||.+.+.+ +..++.  .|+..+.+|..+. ++...
T Consensus       607 iErLiD~vp----IGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~--~F~~~i~Vpnl~~~~~~~~  680 (744)
T KOG0741|consen  607 IERLLDYVP----IGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILD--CFSSTIHVPNLTTGEQLLE  680 (744)
T ss_pred             hhhhhcccc----cCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHH--hhhheeecCccCchHHHHH
Confidence            999864321    1113457788888888887666654 5666666666555 334555  7888999986554 55555


Q ss_pred             HHH
Q 007255          469 ILR  471 (611)
Q Consensus       469 il~  471 (611)
                      ++.
T Consensus       681 vl~  683 (744)
T KOG0741|consen  681 VLE  683 (744)
T ss_pred             HHH
Confidence            555

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=6.9e-42  Score=365.88  Aligned_cols=247  Identities=43%  Similarity=0.711  Sum_probs=230.7

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      ...++|.|+.|.+++|+.|+|++.+ +++|+.|.++|...|+|+||+||||||||.||+|+|.|.+.||+.++++++...
T Consensus       305 ~t~V~FkDVAG~deAK~El~E~V~f-LKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~  383 (774)
T KOG0731|consen  305 NTGVKFKDVAGVDEAKEELMEFVKF-LKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEM  383 (774)
T ss_pred             CCCCccccccCcHHHHHHHHHHHHH-hcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHH
Confidence            3458999999999999999999987 999999999999999999999999999999999999999999999999999999


Q ss_pred             cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCC-CCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGG-SSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~-~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      ++|....+++.+|..++...|||+||||||.+..+|++ ......+.....+|+||.+|||+...+.++|+++||+|+.+
T Consensus       384 ~~g~~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~l  463 (774)
T KOG0731|consen  384 FVGVGASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDIL  463 (774)
T ss_pred             hcccchHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCcccc
Confidence            99999999999999999999999999999999999952 23344456678899999999999999999999999999999


Q ss_pred             chhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccc
Q 007255          443 DAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAV  521 (611)
Q Consensus       443 d~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i  521 (611)
                      |+|++||||||++|++++|+...|.+|++.++++.... +++++..+|..|.||||+||.++|++|+..|.++.  ...|
T Consensus       464 d~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~neaa~~a~r~~--~~~i  541 (774)
T KOG0731|consen  464 DPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCNEAALLAARKG--LREI  541 (774)
T ss_pred             CHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhhHHHHHHHHhc--cCcc
Confidence            99999999999999999999999999999999999885 77899999999999999999999999999998875  5678


Q ss_pred             cHHHHHHHHhhc
Q 007255          522 RNRHFQTVKDSL  533 (611)
Q Consensus       522 ~~~~~~~~l~~~  533 (611)
                      +..|+..|++++
T Consensus       542 ~~~~~~~a~~Rv  553 (774)
T KOG0731|consen  542 GTKDLEYAIERV  553 (774)
T ss_pred             chhhHHHHHHHH
Confidence            999999999854

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=100.00  E-value=3.5e-41  Score=349.34  Aligned_cols=251  Identities=37%  Similarity=0.656  Sum_probs=233.1

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ..|.++|+||+|++.+++.+++.+.+|+.+++.|.++|+.+++++|||||||||||++|+++|++++.+++.+.++++..
T Consensus       138 ~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~  217 (398)
T PTZ00454        138 EKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQ  217 (398)
T ss_pred             CCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHH
Confidence            46889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      +|.|+++..++.+|..++...|+||||||+|.+++++.....+......+.+.+|+..|+++....+++||+|||+|+.+
T Consensus       218 k~~ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~L  297 (398)
T PTZ00454        218 KYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTL  297 (398)
T ss_pred             HhcchhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhC
Confidence            99999999999999999999999999999999998875443333334567889999999998888899999999999999


Q ss_pred             chhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccccccc
Q 007255          443 DAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVR  522 (611)
Q Consensus       443 d~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~  522 (611)
                      |++++|||||+..|+|+.|+.++|..||+.++.+..+..++++..++..++||||+||.++|++|+..|+++.  ...++
T Consensus       298 DpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd~~~la~~t~g~sgaDI~~l~~eA~~~A~r~~--~~~i~  375 (398)
T PTZ00454        298 DPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRKN--RYVIL  375 (398)
T ss_pred             CHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHcC--CCccC
Confidence            9999999999999999999999999999999999999899999999999999999999999999999999885  45899


Q ss_pred             HHHHHHHHhhcCC
Q 007255          523 NRHFQTVKDSLKP  535 (611)
Q Consensus       523 ~~~~~~~l~~~~~  535 (611)
                      .+||..|+.++..
T Consensus       376 ~~df~~A~~~v~~  388 (398)
T PTZ00454        376 PKDFEKGYKTVVR  388 (398)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999987644

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.4e-41  Score=350.69  Aligned_cols=257  Identities=39%  Similarity=0.658  Sum_probs=237.7

Q ss_pred             ccccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255            4 KGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus         4 ~~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      +..+++.+++.|   +||+|++++|+.|++.+.+|+.+++.|.++|+.+|++||||||||||||++|+++|++.+.+|+.
T Consensus       422 Re~~ve~p~v~W---~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFls  498 (693)
T KOG0730|consen  422 REILVEMPNVSW---DDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLS  498 (693)
T ss_pred             hheeccCCCCCh---hhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeee
Confidence            345688999999   89999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCc
Q 007255           84 ISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPH  162 (611)
Q Consensus        84 v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~~~  162 (611)
                      +.+.++.+.|.|++++.++++|+++.+..    |||+|+||||.+...+++ .+....+++++|++.||+.....    +
T Consensus       499 vkgpEL~sk~vGeSEr~ir~iF~kAR~~a----P~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k----~  570 (693)
T KOG0730|consen  499 VKGPELFSKYVGESERAIREVFRKARQVA----PCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALK----N  570 (693)
T ss_pred             ccCHHHHHHhcCchHHHHHHHHHHHhhcC----CeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccC----c
Confidence            99999999999999999999999998765    999999999999998853 33457789999999999876543    6


Q ss_pred             EEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHH
Q 007255          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATM  242 (611)
Q Consensus       163 v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~  242 (611)
                      |+||++||+|+.||+++.|||||+..|++|+||.+.|.+|++.+.++.++.++++++.+++.|+||+|+||..+|++|+.
T Consensus       571 V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~La~~T~g~SGAel~~lCq~A~~  650 (693)
T KOG0730|consen  571 VLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEELAQATEGYSGAEIVAVCQEAAL  650 (693)
T ss_pred             EEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCCCCccccHHHHHHHhccCChHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcccccccccccchhHHHHHHHHhccCCccc
Q 007255          243 SAVKRSSDANECAGVLSVTMEDWRHARSVVGPSIT  277 (611)
Q Consensus       243 ~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~~  277 (611)
                      .+++...+      ...+..++|.++.+...++..
T Consensus       651 ~a~~e~i~------a~~i~~~hf~~al~~~r~s~~  679 (693)
T KOG0730|consen  651 LALRESIE------ATEITWQHFEEALKAVRPSLT  679 (693)
T ss_pred             HHHHHhcc------cccccHHHHHHHHHhhcccCC
Confidence            99997765      456788899999888777653

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=100.00  E-value=5.3e-41  Score=309.86  Aligned_cols=241  Identities=29%  Similarity=0.479  Sum_probs=214.1

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      .+..+++|++|++++|+..+-.+.+ +..|+.|..   ..|+++|||||||||||++|+|+|++.+.+++.+++.++.+.
T Consensus       115 ~~~it~ddViGqEeAK~kcrli~~y-LenPe~Fg~---WAPknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGe  190 (368)
T COG1223         115 ISDITLDDVIGQEEAKRKCRLIMEY-LENPERFGD---WAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGE  190 (368)
T ss_pred             hccccHhhhhchHHHHHHHHHHHHH-hhChHHhcc---cCcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHH
Confidence            4677899999999999987766654 677777654   568899999999999999999999999999999999999999


Q ss_pred             cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccc
Q 007255          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAID  443 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld  443 (611)
                      |+|+....++.+|..|+..+|||+||||+|.|+-.|..++-.  +...+++|+||.+|||+..+.+++.|++||+|+.||
T Consensus       191 hVGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelR--GDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~LD  268 (368)
T COG1223         191 HVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELR--GDVSEIVNALLTELDGIKENEGVVTIAATNRPELLD  268 (368)
T ss_pred             HhhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhc--ccHHHHHHHHHHhccCcccCCceEEEeecCChhhcC
Confidence            999999999999999999999999999999998777554432  223578999999999999999999999999999999


Q ss_pred             hhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHH-HHHHHHHHHHHHhhccccccc
Q 007255          444 AALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELE-GLCREAGIVALREDISATAVR  522 (611)
Q Consensus       444 ~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~-~~~~~a~~~a~~~~~~~~~i~  522 (611)
                      +|+++  ||...|.|.+|+.++|..|++.+.+++++.-+.++..+++.+.|+||+||. .+++.|+..|+.+.  ...++
T Consensus       269 ~aiRs--RFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~~~~~~~~t~g~SgRdikekvlK~aLh~Ai~ed--~e~v~  344 (368)
T COG1223         269 PAIRS--RFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLAAKTKGMSGRDIKEKVLKTALHRAIAED--REKVE  344 (368)
T ss_pred             HHHHh--hhhheeeeeCCChHHHHHHHHHHHHhCCCccccCHHHHHHHhCCCCchhHHHHHHHHHHHHHHHhc--hhhhh
Confidence            99999  999999999999999999999999999999999999999999999999995 45566677777664  55688


Q ss_pred             HHHHHHHHhhcC
Q 007255          523 NRHFQTVKDSLK  534 (611)
Q Consensus       523 ~~~~~~~l~~~~  534 (611)
                      ..|+..|+.+..
T Consensus       345 ~edie~al~k~r  356 (368)
T COG1223         345 REDIEKALKKER  356 (368)
T ss_pred             HHHHHHHHHhhc
Confidence            888888887543

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=8.6e-41  Score=325.79  Aligned_cols=230  Identities=39%  Similarity=0.609  Sum_probs=214.4

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcC-CCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLG-ISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~-~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      -.++|+||+|++.+++++++.+..|+.+++.|.+.+ .++++|+|||||||||||++|+|+|++.+++|+.++++.+.++
T Consensus        87 I~v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~K  166 (386)
T KOG0737|consen   87 IGVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSK  166 (386)
T ss_pred             ceeehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccccchh
Confidence            457899999999999999999999999999997544 4688999999999999999999999999999999999999999


Q ss_pred             cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCC--eEEEEecCCCcc
Q 007255          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKG--ILVLAATNRPHA  441 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~--~~vI~~tn~~~~  441 (611)
                      |.|++++.++.+|..|...+|+||||||+|.+.+.|.   +........++++|....||+...++  ++|+||||+|.+
T Consensus       167 WfgE~eKlv~AvFslAsKl~P~iIFIDEvds~L~~R~---s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATNRP~D  243 (386)
T KOG0737|consen  167 WFGEAQKLVKAVFSLASKLQPSIIFIDEVDSFLGQRR---STDHEATAMMKNEFMALWDGLSSKDSERVLVLGATNRPFD  243 (386)
T ss_pred             hHHHHHHHHHHHHhhhhhcCcceeehhhHHHHHhhcc---cchHHHHHHHHHHHHHHhccccCCCCceEEEEeCCCCCcc
Confidence            9999999999999999999999999999999998883   33446677899999999999976655  999999999999


Q ss_pred             cchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccc
Q 007255          442 IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISAT  519 (611)
Q Consensus       442 ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~  519 (611)
                      +|.|++|  |+...++++.|+..+|.+|++..+++.++.+++|+..+|..|+||||.||+.+|+.|+...+++.+...
T Consensus       244 lDeAiiR--R~p~rf~V~lP~~~qR~kILkviLk~e~~e~~vD~~~iA~~t~GySGSDLkelC~~Aa~~~ire~~~~~  319 (386)
T KOG0737|consen  244 LDEAIIR--RLPRRFHVGLPDAEQRRKILKVILKKEKLEDDVDLDEIAQMTEGYSGSDLKELCRLAALRPIRELLVSE  319 (386)
T ss_pred             HHHHHHH--hCcceeeeCCCchhhHHHHHHHHhcccccCcccCHHHHHHhcCCCcHHHHHHHHHHHhHhHHHHHHHhc
Confidence            9999999  999999999999999999999999999999999999999999999999999999999999998876554

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=100.00  E-value=1.2e-39  Score=340.46  Aligned_cols=255  Identities=45%  Similarity=0.740  Sum_probs=234.9

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      ...|.++|++|+|+++.++.+.+.+..|+.+++.|..+|..+++++|||||||||||++|+++|++++.+|+.++++++.
T Consensus       123 ~~~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~  202 (389)
T PRK03992        123 IESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELV  202 (389)
T ss_pred             cCCCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHh
Confidence            45678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc
Q 007255          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA  441 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~  441 (611)
                      .+|.|+++..++.+|..++...|+||||||+|.++++++...........+.+.+++..++++...+++.||+|||+++.
T Consensus       203 ~~~~g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~  282 (389)
T PRK03992        203 QKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDI  282 (389)
T ss_pred             HhhccchHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhh
Confidence            99999999999999999999999999999999999887654433333445677888899998888889999999999999


Q ss_pred             cchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccc
Q 007255          442 IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAV  521 (611)
Q Consensus       442 ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i  521 (611)
                      +|++++|||||+..|+||+|+.++|.+||+.++++..+..++++..+|..++|||++||+.+|++|+..|+++.  ...+
T Consensus       283 ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~~~~la~~t~g~sgadl~~l~~eA~~~a~~~~--~~~i  360 (389)
T PRK03992        283 LDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIRDD--RTEV  360 (389)
T ss_pred             CCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHcC--CCCc
Confidence            99999999999999999999999999999999999998888999999999999999999999999999998874  5679


Q ss_pred             cHHHHHHHHhhcCCCCC
Q 007255          522 RNRHFQTVKDSLKPALT  538 (611)
Q Consensus       522 ~~~~~~~~l~~~~~~~~  538 (611)
                      +.+||..|+.++++...
T Consensus       361 ~~~d~~~A~~~~~~~~~  377 (389)
T PRK03992        361 TMEDFLKAIEKVMGKEE  377 (389)
T ss_pred             CHHHHHHHHHHHhcccc
Confidence            99999999999887543

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.8e-40  Score=348.44  Aligned_cols=247  Identities=41%  Similarity=0.700  Sum_probs=236.2

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      ...++|.|+.|.+++|+.+.+.+.. ++.|..|.++|...|+|+||+||||||||.+|+|+|.+.+.||++++++++...
T Consensus       144 ~~~v~F~DVAG~dEakeel~EiVdf-Lk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVem  222 (596)
T COG0465         144 QVKVTFADVAGVDEAKEELSELVDF-LKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEM  222 (596)
T ss_pred             ccCcChhhhcCcHHHHHHHHHHHHH-HhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhh
Confidence            4578999999999999999999986 999999999999999999999999999999999999999999999999999999


Q ss_pred             cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccc
Q 007255          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAID  443 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld  443 (611)
                      |+|-....++.+|..++..+|||+||||+|.+...|+...++..+...+.+++||.+||++..+..+++|++||+|+.+|
T Consensus       223 fVGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gviviaaTNRpdVlD  302 (596)
T COG0465         223 FVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAATNRPDVLD  302 (596)
T ss_pred             hcCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEEecCCCcccch
Confidence            99999999999999999999999999999999999987766677777889999999999999889999999999999999


Q ss_pred             hhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccH
Q 007255          444 AALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRN  523 (611)
Q Consensus       444 ~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~  523 (611)
                      +||+||||||+.|.++.||...|.+|++.+.++.++..++++..+|+.|.||+|+|+.+++++|+..|.++.  ...++.
T Consensus       303 ~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl~~iAr~tpGfsGAdL~nl~NEAal~aar~n--~~~i~~  380 (596)
T COG0465         303 PALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSGADLANLLNEAALLAARRN--KKEITM  380 (596)
T ss_pred             HhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCHHHHhhhCCCcccchHhhhHHHHHHHHHHhc--CeeEec
Confidence            999999999999999999999999999999999999999999999999999999999999999999998886  778999


Q ss_pred             HHHHHHHhhc
Q 007255          524 RHFQTVKDSL  533 (611)
Q Consensus       524 ~~~~~~l~~~  533 (611)
                      .||..+..++
T Consensus       381 ~~i~ea~drv  390 (596)
T COG0465         381 RDIEEAIDRV  390 (596)
T ss_pred             cchHHHHHHH
Confidence            9999999887

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=100.00  E-value=3.9e-39  Score=335.57  Aligned_cols=249  Identities=37%  Similarity=0.681  Sum_probs=230.4

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ..|..+|+||+|++..++.+.+++..|+.+++.|..+|+.+++++|||||||||||++|+++|++++.+|+.+..+++.+
T Consensus       176 ~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~  255 (438)
T PTZ00361        176 KAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQ  255 (438)
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhh
Confidence            45778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      +|.|+.+..++.+|..++...|+||||||+|.++.++....++......+.+.+|+..|+++....++.||+|||+++.+
T Consensus       256 k~~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~L  335 (438)
T PTZ00361        256 KYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESL  335 (438)
T ss_pred             hhcchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHh
Confidence            99999999999999999999999999999999998876544333334456778899999998888899999999999999


Q ss_pred             chhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccccccc
Q 007255          443 DAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVR  522 (611)
Q Consensus       443 d~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~  522 (611)
                      |++++|||||+..|+|+.||.++|.+||+.+++++.+..+++++.++..++|||++||..+|.+|+..|+++.  ...|+
T Consensus       336 DpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvdl~~la~~t~g~sgAdI~~i~~eA~~~Alr~~--r~~Vt  413 (438)
T PTZ00361        336 DPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRER--RMKVT  413 (438)
T ss_pred             hHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCcCHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhc--CCccC
Confidence            9999999999999999999999999999999999999889999999999999999999999999999999875  55799


Q ss_pred             HHHHHHHHhhc
Q 007255          523 NRHFQTVKDSL  533 (611)
Q Consensus       523 ~~~~~~~l~~~  533 (611)
                      .+||..|+.++
T Consensus       414 ~~D~~~A~~~v  424 (438)
T PTZ00361        414 QADFRKAKEKV  424 (438)
T ss_pred             HHHHHHHHHHH
Confidence            99999999775

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.6e-39  Score=329.23  Aligned_cols=265  Identities=38%  Similarity=0.607  Sum_probs=239.1

Q ss_pred             cccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhh
Q 007255          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (611)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~  360 (611)
                      ....+.+.|+++.|++.+|+.+.+++.+|+..+..|..+. .+++++||.||||+|||+|++|+|.|.++.|+.++++++
T Consensus       144 ~~~~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr-~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassL  222 (428)
T KOG0740|consen  144 GDTLRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLR-EPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSL  222 (428)
T ss_pred             hccCCcccccCCcchhhHHHHhhhhhhhcccchHhhhccc-cccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHh
Confidence            3345678999999999999999999999999999998654 567899999999999999999999999999999999999


Q ss_pred             ccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--CCCCeEEEEecCC
Q 007255          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--QAKGILVLAATNR  438 (611)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--~~~~~~vI~~tn~  438 (611)
                      .++|+|++++.++.+|+.|+..+|+|+||||+|.++.+|.   .......++++.++|.++++..  +.++++||||||+
T Consensus       223 tsK~~Ge~eK~vralf~vAr~~qPsvifidEidslls~Rs---~~e~e~srr~ktefLiq~~~~~s~~~drvlvigaTN~  299 (428)
T KOG0740|consen  223 TSKYVGESEKLVRALFKVARSLQPSVIFIDEIDSLLSKRS---DNEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGATNR  299 (428)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCCeEEEechhHHHHhhcC---CcccccchhhhhHHHhhhccccCCCCCeEEEEecCCC
Confidence            9999999999999999999999999999999999999983   3444667899999999988764  5668999999999


Q ss_pred             CcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCC-CCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcc
Q 007255          439 PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMK-VGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDIS  517 (611)
Q Consensus       439 ~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~-~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~  517 (611)
                      ||++|.+++|  ||.+.+++|+|++++|..+|+..+.+.+ ...+.+++.+++.|+|||++||.++|++|++..++....
T Consensus       300 P~e~Dea~~R--rf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Tegysgsdi~~l~kea~~~p~r~~~~  377 (428)
T KOG0740|consen  300 PWELDEAARR--RFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEGYSGSDITALCKEAAMGPLRELGG  377 (428)
T ss_pred             chHHHHHHHH--HhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCcccccHHHHHHHhhcCchhhccc
Confidence            9999999999  9999999999999999999998887763 335678999999999999999999999999877766543


Q ss_pred             -----------cccccHHHHHHHHhhcCCCCCHHHHHHHHHHhhc
Q 007255          518 -----------ATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKS  551 (611)
Q Consensus       518 -----------~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  551 (611)
                                 .++++..||..++..++|.++.+..+.|.+|...
T Consensus       378 ~~~~~~~~~~~~r~i~~~df~~a~~~i~~~~s~~~l~~~~~~~~~  422 (428)
T KOG0740|consen  378 TTDLEFIDADKIRPITYPDFKNAFKNIKPSVSLEGLEKYEKWDKE  422 (428)
T ss_pred             chhhhhcchhccCCCCcchHHHHHHhhccccCccccchhHHHhhh
Confidence                       3578999999999999999999999999999764

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3.3e-38  Score=307.07  Aligned_cols=263  Identities=37%  Similarity=0.571  Sum_probs=233.1

Q ss_pred             cccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255            5 GRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus         5 ~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      -++.+-++++|   +||.|++++|+-|++++..|+..|+.|.-+- +|=+++|++||||||||+||+++|.+++..|+.|
T Consensus       201 dIl~~np~ikW---~DIagl~~AK~lL~EAVvlPi~mPe~F~Gir-rPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNV  276 (491)
T KOG0738|consen  201 DILQRNPNIKW---DDIAGLHEAKKLLKEAVVLPIWMPEFFKGIR-RPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNV  276 (491)
T ss_pred             HHhccCCCcCh---HhhcchHHHHHHHHHHHhhhhhhHHHHhhcc-cccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEe
Confidence            35677889999   8999999999999999999999999987432 2339999999999999999999999999999999


Q ss_pred             cccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC--chhhHHHHHHHHHHHhcCCCCCCCCCc
Q 007255           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR--REQDVRIASQLFTLMDSNKPSKTSVPH  162 (611)
Q Consensus        85 ~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~--~~~~~~~~~~ll~~l~~~~~~~~~~~~  162 (611)
                      +.+++.+.|.|++++.++-+|+.+.-++    |++|||||||.|+..+++.  .+.+.++-+.|+-.||+..........
T Consensus       277 SsstltSKwRGeSEKlvRlLFemARfyA----PStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~  352 (491)
T KOG0738|consen  277 SSSTLTSKWRGESEKLVRLLFEMARFYA----PSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKV  352 (491)
T ss_pred             chhhhhhhhccchHHHHHHHHHHHHHhC----CceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhcccccccccee
Confidence            9999999999999999999999999886    9999999999999988644  456778999999999987655444345


Q ss_pred             EEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHH
Q 007255          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATM  242 (611)
Q Consensus       163 v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~  242 (611)
                      |+|.++||.|++||++++|  ||...|++|.|+.+.|..+++..++.....++.+++.++..++||+|.||.++|++|.+
T Consensus       353 VmVLAATN~PWdiDEAlrR--RlEKRIyIPLP~~~~R~~Li~~~l~~~~~~~~~~~~~lae~~eGySGaDI~nvCreAsm  430 (491)
T KOG0738|consen  353 VMVLAATNFPWDIDEALRR--RLEKRIYIPLPDAEARSALIKILLRSVELDDPVNLEDLAERSEGYSGADITNVCREASM  430 (491)
T ss_pred             EEEEeccCCCcchHHHHHH--HHhhheeeeCCCHHHHHHHHHHhhccccCCCCccHHHHHHHhcCCChHHHHHHHHHHHH
Confidence            8999999999999999999  99999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhccccc---------ccccccchhHHHHHHHHhccCCccc
Q 007255          243 SAVKRSSDAN---------ECAGVLSVTMEDWRHARSVVGPSIT  277 (611)
Q Consensus       243 ~a~~r~~~~~---------~~~~~~~v~~ed~~~a~~~i~~~~~  277 (611)
                      .+++|...-.         .......++.+||..|+..+.|+..
T Consensus       431 ~~mRR~i~g~~~~ei~~lakE~~~~pv~~~Dfe~Al~~v~pSvs  474 (491)
T KOG0738|consen  431 MAMRRKIAGLTPREIRQLAKEEPKMPVTNEDFEEALRKVRPSVS  474 (491)
T ss_pred             HHHHHHHhcCCcHHhhhhhhhccccccchhhHHHHHHHcCcCCC
Confidence            9999764321         1111256889999999999988765

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.3e-38  Score=319.89  Aligned_cols=262  Identities=36%  Similarity=0.620  Sum_probs=228.4

Q ss_pred             CCCccccc--ccchh-HHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC-cEEeecchh
Q 007255          284 IPKVTWED--IGGLR-DLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-SFFSLSGAE  359 (611)
Q Consensus       284 ~~~~~~~~--i~g~~-~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~-~~~~~~~~~  359 (611)
                      .|...|++  |+|++ +.-+..++++..-+-.|+..+++|+...+|+|||||||||||.+|+.+...+++ +--.+++++
T Consensus       213 ~Pdf~Fe~mGIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPe  292 (744)
T KOG0741|consen  213 NPDFNFESMGIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPE  292 (744)
T ss_pred             CCCCChhhcccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcHH
Confidence            35556665  56775 445566788888788899999999999999999999999999999999999975 456789999


Q ss_pred             hccccccchHHHHHHHHHHHHhcC----C----cEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeE
Q 007255          360 LYSMYVGESEALLRNTFQRARLAA----P----SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGIL  431 (611)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a~~~~----p----~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  431 (611)
                      ++++|+|++|++++++|..|....    +    -||++||||.++..||+.+++ ...++.++|+||.-|||++.-.+++
T Consensus       293 IL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g~-TGVhD~VVNQLLsKmDGVeqLNNIL  371 (744)
T KOG0741|consen  293 ILNKYVGESEENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGS-TGVHDTVVNQLLSKMDGVEQLNNIL  371 (744)
T ss_pred             HHHHhhcccHHHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcCCCCCC-CCccHHHHHHHHHhcccHHhhhcEE
Confidence            999999999999999999986432    1    299999999999999876654 4678999999999999999999999


Q ss_pred             EEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCC----CCCcccHHHHHHhCCCCCHHHHHHHHHHH
Q 007255          432 VLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMK----VGDDVDLRSIAEETELFTGAELEGLCREA  507 (611)
Q Consensus       432 vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~----~~~~~~~~~la~~~~g~s~~~i~~~~~~a  507 (611)
                      |||.||+.+.||.||+|||||+..+++.+||+..|.||++++++++.    +..++|+.+||..|.+|||++|+.+++.|
T Consensus       372 VIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~rMre~~~l~~dVdl~elA~lTKNfSGAEleglVksA  451 (744)
T KOG0741|consen  372 VIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKIHTKRMRENNKLSADVDLKELAALTKNFSGAELEGLVKSA  451 (744)
T ss_pred             EEeccCchhhHHHHhcCCCceEEEEEEeCCCccCceEEEEhhhhhhhhcCCCCCCcCHHHHHHHhcCCchhHHHHHHHHH
Confidence            99999999999999999999999999999999999999999987764    45789999999999999999999999999


Q ss_pred             HHHHHHhhccc-------------ccccHHHHHHHHhhcCCCC--CHHHHHHHH
Q 007255          508 GIVALREDISA-------------TAVRNRHFQTVKDSLKPAL--TKEEIDSYS  546 (611)
Q Consensus       508 ~~~a~~~~~~~-------------~~i~~~~~~~~l~~~~~~~--~~~~~~~~~  546 (611)
                      ...|+.|++..             -.++.+||..||..++|+.  ++++++.+.
T Consensus       452 ~S~A~nR~vk~~~~~~~~~~~~e~lkV~r~DFl~aL~dVkPAFG~see~l~~~~  505 (744)
T KOG0741|consen  452 QSFAMNRHVKAGGKVEVDPVAIENLKVTRGDFLNALEDVKPAFGISEEDLERFV  505 (744)
T ss_pred             HHHHHHhhhccCcceecCchhhhheeecHHHHHHHHHhcCcccCCCHHHHHHHH
Confidence            99999998743             2588999999999999985  555544443

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=100.00  E-value=2.7e-37  Score=334.14  Aligned_cols=250  Identities=42%  Similarity=0.716  Sum_probs=228.5

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      ...|.++|+|++|++++++.+.+.+.+ +.+++.+.+.|..+++|+|||||||||||++|+++|.+++.+++.++++++.
T Consensus        47 ~~~~~~~~~di~g~~~~k~~l~~~~~~-l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~  125 (495)
T TIGR01241        47 EEKPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFV  125 (495)
T ss_pred             CCCCCCCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHH
Confidence            345788999999999999999998876 8899999999999999999999999999999999999999999999999999


Q ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc
Q 007255          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA  441 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~  441 (611)
                      +.+.|.++..++.+|..++...|+||||||+|.+..+++...+.......+.+++||.+||++...++++||+|||+|+.
T Consensus       126 ~~~~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~  205 (495)
T TIGR01241       126 EMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDV  205 (495)
T ss_pred             HHHhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhh
Confidence            99999999999999999999999999999999999887653333334456889999999999988889999999999999


Q ss_pred             cchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccc
Q 007255          442 IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAV  521 (611)
Q Consensus       442 ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i  521 (611)
                      +|++++||||||..|+++.|+.++|.+||+.++++.+...++++..+|..+.|||++||.++|++|...+.++.  .+++
T Consensus       206 ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~~~l~~la~~t~G~sgadl~~l~~eA~~~a~~~~--~~~i  283 (495)
T TIGR01241       206 LDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAALLAARKN--KTEI  283 (495)
T ss_pred             cCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcchhHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcC--CCCC
Confidence            99999999999999999999999999999999998887788899999999999999999999999988877653  5679


Q ss_pred             cHHHHHHHHhhcC
Q 007255          522 RNRHFQTVKDSLK  534 (611)
Q Consensus       522 ~~~~~~~~l~~~~  534 (611)
                      +.+|+..++.+..
T Consensus       284 ~~~~l~~a~~~~~  296 (495)
T TIGR01241       284 TMNDIEEAIDRVI  296 (495)
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998763

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.1e-38  Score=300.20  Aligned_cols=247  Identities=35%  Similarity=0.634  Sum_probs=226.1

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~  364 (611)
                      ..++|+.++|.-++...+++.++.|+..++.|.++|+.+|.+++||||||+|||.+|+++|..++++|+.+.++.+.++|
T Consensus       127 ~~~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~ky  206 (388)
T KOG0651|consen  127 RNISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKY  206 (388)
T ss_pred             cccCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhh
Confidence            35689999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccch
Q 007255          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDA  444 (611)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~  444 (611)
                      .|++...++..|..|+...|||+|+||||.+.+.+..........-.+.+-.|+++|+++...+++-+|+|||+|+.|||
T Consensus       207 iGEsaRlIRemf~yA~~~~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~ImatNrpdtLdp  286 (388)
T KOG0651|consen  207 IGESARLIRDMFRYAREVIPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTIMATNRPDTLDP  286 (388)
T ss_pred             cccHHHHHHHHHHHHhhhCceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccEEEecCCccccch
Confidence            99999999999999999999999999999999998555544445556667788899999999999999999999999999


Q ss_pred             hccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHH
Q 007255          445 ALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNR  524 (611)
Q Consensus       445 al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~  524 (611)
                      ||+||||+|+.+.+|+|+...|..|++.+.+.+......+.+.+.+..+||.++|+++.|.+|...+..+.  ...+-.+
T Consensus       287 aLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~~d~f~gad~rn~~tEag~Fa~~~~--~~~vl~E  364 (388)
T KOG0651|consen  287 ALLRPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKLVDGFNGADLRNVCTEAGMFAIPEE--RDEVLHE  364 (388)
T ss_pred             hhcCCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHHHhccChHHHhhhcccccccccchh--hHHHhHH
Confidence            99999999999999999999999999999998888888999999999999999999999999998887664  3345566


Q ss_pred             HHHHHHhhc
Q 007255          525 HFQTVKDSL  533 (611)
Q Consensus       525 ~~~~~l~~~  533 (611)
                      +|..+..+.
T Consensus       365 d~~k~vrk~  373 (388)
T KOG0651|consen  365 DFMKLVRKQ  373 (388)
T ss_pred             HHHHHHHHH
Confidence            777777554

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=7.5e-37  Score=319.86  Aligned_cols=259  Identities=38%  Similarity=0.612  Sum_probs=231.5

Q ss_pred             cccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccc
Q 007255            9 SEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (611)
Q Consensus         9 ~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~   88 (611)
                      ..+|+.|   +||+|++++|+.|.+.+..|+.+++.+.. |.++..+||||||||||||.+|+++|.++..+|+.|...+
T Consensus       665 KIPnV~W---dDVGGLeevK~eIldTIqlPL~hpeLfss-glrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPE  740 (953)
T KOG0736|consen  665 KIPNVSW---DDVGGLEEVKTEILDTIQLPLKHPELFSS-GLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPE  740 (953)
T ss_pred             CCCccch---hcccCHHHHHHHHHHHhcCcccChhhhhc-cccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHH
Confidence            3689999   99999999999999999999999999875 8888899999999999999999999999999999999999


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCc---hhhHHHHHHHHHHHhcCCCCCCCCCcEEE
Q 007255           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR---EQDVRIASQLFTLMDSNKPSKTSVPHVVV  165 (611)
Q Consensus        89 ~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~---~~~~~~~~~ll~~l~~~~~~~~~~~~v~i  165 (611)
                      +.+.|.|+++++++++|+.|...    .|||||+||+|.++|.++..+   ....+++++|+..||.....  ....|+|
T Consensus       741 LLNMYVGqSE~NVR~VFerAR~A----~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~--~s~~VFV  814 (953)
T KOG0736|consen  741 LLNMYVGQSEENVREVFERARSA----APCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDS--SSQDVFV  814 (953)
T ss_pred             HHHHHhcchHHHHHHHHHHhhcc----CCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCC--CCCceEE
Confidence            99999999999999999999866    499999999999999886332   33458999999999987653  2336999


Q ss_pred             EEeecCcccccHHhhccCCcceEEEccCC-CHHHHHHHHHHhhcCCCCCCcccHHHHHHhcc-CCccccHHHHHHHHHHH
Q 007255          166 VASTNRVDAIDPALRRSGRFDAEVEVTVP-TAEERFEILKLYTKKVPLDANVDLEAIATSCN-GYVGADLEALCREATMS  243 (611)
Q Consensus       166 i~ttn~~~~l~~~l~~~~Rf~~~i~~~~p-~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~-g~~~~dl~~l~~~a~~~  243 (611)
                      |++||+|+.+||+|.|||||+..+++.++ |.+.+..+++...+++.++.++++.++|+.|. .|+|.|+-.+|..|+..
T Consensus       815 iGATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrkFkLdedVdL~eiAk~cp~~~TGADlYsLCSdA~l~  894 (953)
T KOG0736|consen  815 IGATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRKFKLDEDVDLVEIAKKCPPNMTGADLYSLCSDAMLA  894 (953)
T ss_pred             EecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHHHccCCCCcCHHHHHhhCCcCCchhHHHHHHHHHHHH
Confidence            99999999999999999999999999888 77788999999999999999999999999985 58999999999999999


Q ss_pred             Hhhhcccc---------cccccccchhHHHHHHHHhccCCccc
Q 007255          244 AVKRSSDA---------NECAGVLSVTMEDWRHARSVVGPSIT  277 (611)
Q Consensus       244 a~~r~~~~---------~~~~~~~~v~~ed~~~a~~~i~~~~~  277 (611)
                      |++|..+.         +.....+.++++||.++.+++.|+..
T Consensus       895 AikR~i~~ie~g~~~~~e~~~~~v~V~~eDflks~~~l~PSvS  937 (953)
T KOG0736|consen  895 AIKRTIHDIESGTISEEEQESSSVRVTMEDFLKSAKRLQPSVS  937 (953)
T ss_pred             HHHHHHHHhhhccccccccCCceEEEEHHHHHHHHHhcCCccc
Confidence            99986543         22334567899999999999988764

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=100.00  E-value=3.4e-36  Score=313.71  Aligned_cols=249  Identities=47%  Similarity=0.783  Sum_probs=227.4

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ..|.++|++++|++..++.+.+.+..|+.+++.+..+|..+++++|||||||||||++|+++|++++.+++.+..+++..
T Consensus       115 ~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~  194 (364)
T TIGR01242       115 ERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVR  194 (364)
T ss_pred             cCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHH
Confidence            45788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      +|.|.....++.+|..++...|+||||||+|.+..++............+.+.+++..++++...+++.||+|||+++.+
T Consensus       195 ~~~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~l  274 (364)
T TIGR01242       195 KYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDIL  274 (364)
T ss_pred             HhhhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhC
Confidence            99999999999999999999999999999999987765443333333456778888889888777889999999999999


Q ss_pred             chhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccccccc
Q 007255          443 DAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVR  522 (611)
Q Consensus       443 d~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~  522 (611)
                      |++++|||||+..|+|+.|+.++|.+||+.++.+.....++++..++..++|||++||..+|++|+..|+++.  ...|+
T Consensus       275 d~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~~~~la~~t~g~sg~dl~~l~~~A~~~a~~~~--~~~i~  352 (364)
T TIGR01242       275 DPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICTEAGMFAIREE--RDYVT  352 (364)
T ss_pred             ChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhC--CCccC
Confidence            9999999999999999999999999999999998888888999999999999999999999999999998874  56799


Q ss_pred             HHHHHHHHhhc
Q 007255          523 NRHFQTVKDSL  533 (611)
Q Consensus       523 ~~~~~~~l~~~  533 (611)
                      .+||..|++++
T Consensus       353 ~~d~~~a~~~~  363 (364)
T TIGR01242       353 MDDFIKAVEKV  363 (364)
T ss_pred             HHHHHHHHHHh
Confidence            99999998754

Many proteins may score above the trusted cutoff because an internal

>TIGR03689 pup_AAA proteasome ATPase

Probab=100.00  E-value=4.6e-36  Score=316.29  Aligned_cols=249  Identities=34%  Similarity=0.624  Sum_probs=213.5

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc----------
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS----------  351 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~----------  351 (611)
                      ...|.++|++|+|++..++.+++.+..|+.+++.|.++|+.+++++|||||||||||++|+++|++++.+          
T Consensus       174 ~~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~  253 (512)
T TIGR03689       174 EEVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSY  253 (512)
T ss_pred             ecCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCcee
Confidence            3457899999999999999999999999999999999999999999999999999999999999998543          


Q ss_pred             EEeecchhhccccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCC
Q 007255          352 FFSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA  427 (611)
Q Consensus       352 ~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  427 (611)
                      |+.++.+++.++|.|+++..++.+|..++..    .|+||||||+|.++++|+...+  .+...+++++||..||++...
T Consensus       254 fl~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s--~d~e~~il~~LL~~LDgl~~~  331 (512)
T TIGR03689       254 FLNIKGPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVS--SDVETTVVPQLLSELDGVESL  331 (512)
T ss_pred             EEeccchhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCcc--chHHHHHHHHHHHHhcccccC
Confidence            6678888999999999999999999998764    6999999999999988764322  234578899999999999888


Q ss_pred             CCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcC-CCCC---------CcccHHHHHHh------
Q 007255          428 KGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRN-MKVG---------DDVDLRSIAEE------  491 (611)
Q Consensus       428 ~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~-~~~~---------~~~~~~~la~~------  491 (611)
                      ++++||+|||+++.||+|++||||||.+|+|++|+.++|.+||+.++.. ++..         ...++..+++.      
T Consensus       332 ~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~~l~l~~~l~~~~g~~~a~~~al~~~av~~~~  411 (512)
T TIGR03689       332 DNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTDSLPLDADLAEFDGDREATAAALIQRAVDHLY  411 (512)
T ss_pred             CceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhccCCchHHHHHhcCCCHHHHHHHHHHHHHHHh
Confidence            8999999999999999999999999999999999999999999988754 3331         11222333222      


Q ss_pred             -----------------------CCCCCHHHHHHHHHHHHHHHHHhhcc--cccccHHHHHHHHhh
Q 007255          492 -----------------------TELFTGAELEGLCREAGIVALREDIS--ATAVRNRHFQTVKDS  532 (611)
Q Consensus       492 -----------------------~~g~s~~~i~~~~~~a~~~a~~~~~~--~~~i~~~~~~~~l~~  532 (611)
                                             ++.+||+.|.++|..|...|+++.+.  ...++.+|+..++..
T Consensus       412 a~~~~~~~l~~~~~~g~~~~l~~~d~~sGa~i~~iv~~a~~~ai~~~~~~~~~~~~~~~l~~a~~~  477 (512)
T TIGR03689       412 ATSEENRYVEVTYANGSTEVLYFKDFVSGAMIANIVDRAKKRAIKDHITGGQVGLRIEHLLAAVLD  477 (512)
T ss_pred             hhhcccceeEEEecCCceeeEeecccccHHHHHHHHHHHHHHHHHHHHhcCCcCcCHHHHHHHHHH
Confidence                                   56789999999999999999988763  357889999998854

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3.8e-36  Score=302.53  Aligned_cols=244  Identities=37%  Similarity=0.567  Sum_probs=221.7

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      .+|+|+-|.+++|++|++++.+ +..|..+.++|-+.|++|||+||||||||.|||++|.+.+.+|++.+.+++...+.|
T Consensus       301 v~F~dVkG~DEAK~ELeEiVef-LkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~VG  379 (752)
T KOG0734|consen  301 VTFEDVKGVDEAKQELEEIVEF-LKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVG  379 (752)
T ss_pred             cccccccChHHHHHHHHHHHHH-hcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhhc
Confidence            4689999999999999999877 889999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCch-hhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRRE-QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA  174 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~-~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~  174 (611)
                      .-.++++++|..++..+    ||||||||||.+...+..... .....+++|+..||++....    .|+||++||.|+.
T Consensus       380 vGArRVRdLF~aAk~~A----PcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNe----GiIvigATNfpe~  451 (752)
T KOG0734|consen  380 VGARRVRDLFAAAKARA----PCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNE----GIIVIGATNFPEA  451 (752)
T ss_pred             ccHHHHHHHHHHHHhcC----CeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCC----ceEEEeccCChhh
Confidence            99999999999998765    999999999999988865433 66788899999999977543    6999999999999


Q ss_pred             ccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccccccc
Q 007255          175 IDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANEC  254 (611)
Q Consensus       175 l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~  254 (611)
                      +|++|.|||||+.++.+|.||..-|.+|++.++.+...+.++|+.-+|.-|.||+|.||+++++.|+..+....      
T Consensus       452 LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki~~~~~VD~~iiARGT~GFsGAdLaNlVNqAAlkAa~dg------  525 (752)
T KOG0734|consen  452 LDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKIPLDEDVDPKIIARGTPGFSGADLANLVNQAALKAAVDG------  525 (752)
T ss_pred             hhHHhcCCCccceeEecCCCCcccHHHHHHHHHhcCCcccCCCHhHhccCCCCCchHHHHHHHHHHHHHHHhcC------
Confidence            99999999999999999999999999999999999999999999999999999999999999999998876533      


Q ss_pred             ccccchhHHHHHHHHhccCCcc
Q 007255          255 AGVLSVTMEDWRHARSVVGPSI  276 (611)
Q Consensus       255 ~~~~~v~~ed~~~a~~~i~~~~  276 (611)
                        ...+++.++..+..++-...
T Consensus       526 --a~~VtM~~LE~akDrIlMG~  545 (752)
T KOG0734|consen  526 --AEMVTMKHLEFAKDRILMGP  545 (752)
T ss_pred             --cccccHHHHhhhhhheeecc
Confidence              23588888888877664433

>CHL00176 ftsH cell division protein; Validated

Probab=100.00  E-value=9.1e-36  Score=324.68  Aligned_cols=246  Identities=42%  Similarity=0.692  Sum_probs=225.4

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~  364 (611)
                      +.++|+|++|++++++.+.+.+.. ++.+..+..+|...++++||+||||||||++|+++|.+++.+++.++++++...+
T Consensus       178 ~~~~f~dv~G~~~~k~~l~eiv~~-lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~  256 (638)
T CHL00176        178 TGITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMF  256 (638)
T ss_pred             CCCCHHhccChHHHHHHHHHHHHH-HhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHh
Confidence            467899999999999999998775 7889999999999999999999999999999999999999999999999999999


Q ss_pred             ccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccch
Q 007255          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDA  444 (611)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~  444 (611)
                      .|.....++.+|..++...||||||||+|.+...|+...+.......+.+++||.+||++....+++||++||+|+.+|+
T Consensus       257 ~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~  336 (638)
T CHL00176        257 VGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDA  336 (638)
T ss_pred             hhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhh
Confidence            99888899999999999999999999999999887654444445567889999999999888889999999999999999


Q ss_pred             hccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHH
Q 007255          445 ALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNR  524 (611)
Q Consensus       445 al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~  524 (611)
                      +++||||||..|.+++|+.++|.+||+.++++.....++++..+|..+.|||++||+++|++|+..+.++.  ...++..
T Consensus       337 ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~~d~~l~~lA~~t~G~sgaDL~~lvneAal~a~r~~--~~~It~~  414 (638)
T CHL00176        337 ALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARRK--KATITMK  414 (638)
T ss_pred             hhhccccCceEEEECCCCHHHHHHHHHHHHhhcccchhHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhC--CCCcCHH
Confidence            99999999999999999999999999999998777788999999999999999999999999988877664  4679999


Q ss_pred             HHHHHHhhc
Q 007255          525 HFQTVKDSL  533 (611)
Q Consensus       525 ~~~~~l~~~  533 (611)
                      |+..++.++
T Consensus       415 dl~~Ai~rv  423 (638)
T CHL00176        415 EIDTAIDRV  423 (638)
T ss_pred             HHHHHHHHH
Confidence            999999876

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3.6e-35  Score=271.27  Aligned_cols=252  Identities=34%  Similarity=0.597  Sum_probs=218.6

Q ss_pred             cccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255            5 GRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus         5 ~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      +++.+.+...+   ++|+|++.+++.|.+++..|+.+.+.+..+|+.+|+++|+|||||||||.+++++|.+.+..|..+
T Consensus       160 MevDekPtE~Y---sDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKL  236 (424)
T KOG0652|consen  160 MEVDEKPTEQY---SDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKL  236 (424)
T ss_pred             eeeccCCcccc---cccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHh
Confidence            44555555555   899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCC-CCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        85 ~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~-~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      -..++...+.|+-.+.+++.|.-++...    |+|+||||+|.+...+ ++....+.+++..++.++..... +.+...|
T Consensus       237 AgPQLVQMfIGdGAkLVRDAFaLAKEka----P~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDG-Fss~~~v  311 (424)
T KOG0652|consen  237 AGPQLVQMFIGDGAKLVRDAFALAKEKA----PTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDG-FSSDDRV  311 (424)
T ss_pred             cchHHHhhhhcchHHHHHHHHHHhhccC----CeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcC-CCCccce
Confidence            9999999999999999999999887654    9999999999998765 34444456667666555543322 1133468


Q ss_pred             EEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHH
Q 007255          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMS  243 (611)
Q Consensus       164 ~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~  243 (611)
                      -+|++||+.+-+||++.|+||.++.|+||.|+.+.|.+|++.+.++.....++++++++..|++|+|.....+|-+|...
T Consensus       312 KviAATNRvDiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~DvNfeELaRsTddFNGAQcKAVcVEAGMi  391 (424)
T KOG0652|consen  312 KVIAATNRVDILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVSDDVNFEELARSTDDFNGAQCKAVCVEAGMI  391 (424)
T ss_pred             EEEeecccccccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCCCCCCHHHHhhcccccCchhheeeehhhhHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcccccccccccchhHHHHHHHHhcc
Q 007255          244 AVKRSSDANECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       244 a~~r~~~~~~~~~~~~v~~ed~~~a~~~i  272 (611)
                      ++++...        .++.+||......+
T Consensus       392 ALRr~at--------ev~heDfmegI~eV  412 (424)
T KOG0652|consen  392 ALRRGAT--------EVTHEDFMEGILEV  412 (424)
T ss_pred             HHhcccc--------cccHHHHHHHHHHH
Confidence            9997643        57788887765443

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=100.00  E-value=2.4e-33  Score=315.77  Aligned_cols=440  Identities=22%  Similarity=0.289  Sum_probs=300.1

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~   85 (611)
                      ..+++++|+++.+..+.+.+..             +..++++|+||||||||++++.+|+.+          +..++.++
T Consensus       179 ~~l~~~igr~~ei~~~~~~L~~-------------~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~  245 (731)
T TIGR02639       179 GKIDPLIGREDELERTIQVLCR-------------RKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLD  245 (731)
T ss_pred             CCCCcccCcHHHHHHHHHHHhc-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEec
Confidence            4678999999999988776633             245789999999999999999999987          67788888


Q ss_pred             ccccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        86 ~~~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      .+.+.  ..+.|+.+..++.+|+.+...    .++||||||+|.+++.+.... ......+.|...+..        +.+
T Consensus       246 ~~~l~a~~~~~g~~e~~l~~i~~~~~~~----~~~ILfiDEih~l~~~g~~~~-~~~~~~~~L~~~l~~--------g~i  312 (731)
T TIGR02639       246 MGSLLAGTKYRGDFEERLKAVVSEIEKE----PNAILFIDEIHTIVGAGATSG-GSMDASNLLKPALSS--------GKL  312 (731)
T ss_pred             HHHHhhhccccchHHHHHHHHHHHHhcc----CCeEEEEecHHHHhccCCCCC-ccHHHHHHHHHHHhC--------CCe
Confidence            88776  467889999999999987643    388999999999987653211 122344555555543        358


Q ss_pred             EEEEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCC----CCC-CcccHHHHHHhccCCccc--
Q 007255          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV----PLD-ANVDLEAIATSCNGYVGA--  231 (611)
Q Consensus       164 ~ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~----~~~-~~~~~~~la~~~~g~~~~--  231 (611)
                      .+|++||..+     ..|+++.|  ||. .|.++.|+.+++.+|++.....+    ... .+..+..++..+..|.+.  
T Consensus       313 ~~IgaTt~~e~~~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~ryi~~r~  389 (731)
T TIGR02639       313 RCIGSTTYEEYKNHFEKDRALSR--RFQ-KIDVGEPSIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSARYINDRF  389 (731)
T ss_pred             EEEEecCHHHHHHHhhhhHHHHH--hCc-eEEeCCCCHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhhccccccc
Confidence            8999998743     57999999  996 79999999999999999765432    111 233477778877777543  


Q ss_pred             ---cHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhccCCccccccc-------ccCCCcccccccchhHHHHH
Q 007255          232 ---DLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVT-------VEIPKVTWEDIGGLRDLKKK  301 (611)
Q Consensus       232 ---dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~~~~~~-------~~~~~~~~~~i~g~~~~k~~  301 (611)
                         -...++++|+....-+..    ......++.+|+................       ......--..|+||+.+++.
T Consensus       390 ~P~kai~lld~a~a~~~~~~~----~~~~~~v~~~~i~~~i~~~tgiP~~~~~~~~~~~l~~l~~~l~~~v~GQ~~ai~~  465 (731)
T TIGR02639       390 LPDKAIDVIDEAGASFRLRPK----AKKKANVSVKDIENVVAKMAHIPVKTVSVDDREKLKNLEKNLKAKIFGQDEAIDS  465 (731)
T ss_pred             CCHHHHHHHHHhhhhhhcCcc----cccccccCHHHHHHHHHHHhCCChhhhhhHHHHHHHHHHHHHhcceeCcHHHHHH
Confidence               224556665543211110    0112347777777776654211100000       00111123457899999888


Q ss_pred             HHHHhhccCCChhHHhhcCC----CCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc------------cc
Q 007255          302 LQQAVEWPIKHSTAFSRLGI----SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM------------YV  365 (611)
Q Consensus       302 l~~~~~~~~~~~~~~~~~~~----~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~------------~~  365 (611)
                      +.+.+...        +.|+    +|..++||+||||||||++|+++|..++.+++.++++++..+            |+
T Consensus       466 l~~~i~~~--------~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~~~~lig~~~gyv  537 (731)
T TIGR02639       466 LVSSIKRS--------RAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHTVSRLIGAPPGYV  537 (731)
T ss_pred             HHHHHHHH--------hcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcccHHHHhcCCCCCc
Confidence            88877631        2232    244468999999999999999999999999999998876442            33


Q ss_pred             cchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC---------CCCCeEEEEec
Q 007255          366 GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE---------QAKGILVLAAT  436 (611)
Q Consensus       366 g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~~~vI~~t  436 (611)
                      |..+  ...+.+.++..+.+|++|||+|.+              +..+.+.|++.||...         .-.+++||+||
T Consensus       538 g~~~--~~~l~~~~~~~p~~VvllDEieka--------------~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Ts  601 (731)
T TIGR02639       538 GFEQ--GGLLTEAVRKHPHCVLLLDEIEKA--------------HPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTS  601 (731)
T ss_pred             ccch--hhHHHHHHHhCCCeEEEEechhhc--------------CHHHHHHHHHhhccCeeecCCCcccCCCCCEEEECC
Confidence            3222  223444556667789999999976              3567889999988531         12357899999


Q ss_pred             CCCc-------------------------ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCC---------CCC-C
Q 007255          437 NRPH-------------------------AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNM---------KVG-D  481 (611)
Q Consensus       437 n~~~-------------------------~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~---------~~~-~  481 (611)
                      |...                         .+.|.|+.  |+|.+|.|.+.+.++..+|++..+...         .+. +
T Consensus       602 n~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~--Rid~Vi~F~pLs~e~l~~Iv~~~L~~l~~~l~~~~~~l~i~  679 (731)
T TIGR02639       602 NAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRN--RLDAIIHFNPLSEEVLEKIVQKFVDELSKQLNEKNIKLELT  679 (731)
T ss_pred             CcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHh--cCCeEEEcCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEeC
Confidence            8642                         13455665  999999999999999999998765432         111 2


Q ss_pred             cccHHHHHHh--CCCCCHHHHHHHHHHHHHHHHHh
Q 007255          482 DVDLRSIAEE--TELFTGAELEGLCREAGIVALRE  514 (611)
Q Consensus       482 ~~~~~~la~~--~~g~s~~~i~~~~~~a~~~a~~~  514 (611)
                      +..++.|+..  ...|..+.++.+++......+-+
T Consensus       680 ~~a~~~La~~~~~~~~GaR~l~r~i~~~~~~~l~~  714 (731)
T TIGR02639       680 DDAKKYLAEKGYDEEFGARPLARVIQEEIKKPLSD  714 (731)
T ss_pred             HHHHHHHHHhCCCcccCchHHHHHHHHHhHHHHHH
Confidence            2335566664  23455677777777655555433

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.3e-34  Score=264.73  Aligned_cols=238  Identities=35%  Similarity=0.595  Sum_probs=212.0

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccch
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGES   97 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~   97 (611)
                      ..+|+|++-+|+.++++++.|+...+.+++.|+.||+++|+|||||||||++++++|+.....|+.+..+++...|.|+-
T Consensus       154 y~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefvqkylgeg  233 (408)
T KOG0727|consen  154 YADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQKYLGEG  233 (408)
T ss_pred             ccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHHHHHhccC
Confidence            38999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCC-CCCchhhHHHHH---HHHHHHhcCCCCCCCCCcEEEEEeecCcc
Q 007255           98 EKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRREQDVRIAS---QLFTLMDSNKPSKTSVPHVVVVASTNRVD  173 (611)
Q Consensus        98 ~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~-~~~~~~~~~~~~---~ll~~l~~~~~~~~~~~~v~ii~ttn~~~  173 (611)
                      .+.++++|.-++...    |+|+||||+|.++..+ +.....+.+++.   .|++.||++....    +|-+|.+||+.+
T Consensus       234 prmvrdvfrlakena----psiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~----nvkvimatnrad  305 (408)
T KOG0727|consen  234 PRMVRDVFRLAKENA----PSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTT----NVKVIMATNRAD  305 (408)
T ss_pred             cHHHHHHHHHHhccC----CcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCccc----ceEEEEecCccc
Confidence            999999999988654    9999999999998654 443444444444   5566667665433    689999999999


Q ss_pred             cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccc
Q 007255          174 AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE  253 (611)
Q Consensus       174 ~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~  253 (611)
                      .+||+++|+||.++.|+||.|+..+++-+|.....+..+..+++++.+..+.+..+|.+|..+|++|...+++...    
T Consensus       306 tldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls~~vdle~~v~rpdkis~adi~aicqeagm~avr~nr----  381 (408)
T KOG0727|consen  306 TLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVDLEDLVARPDKISGADINAICQEAGMLAVRENR----  381 (408)
T ss_pred             ccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCCcccCHHHHhcCccccchhhHHHHHHHHhHHHHHhcc----
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999988543    


Q ss_pred             cccccchhHHHHHHHHhc
Q 007255          254 CAGVLSVTMEDWRHARSV  271 (611)
Q Consensus       254 ~~~~~~v~~ed~~~a~~~  271 (611)
                          -.+...||.++...
T Consensus       382 ----yvvl~kd~e~ay~~  395 (408)
T KOG0727|consen  382 ----YVVLQKDFEKAYKT  395 (408)
T ss_pred             ----eeeeHHHHHHHHHh
Confidence                24667788877654

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3.4e-35  Score=276.32  Aligned_cols=234  Identities=33%  Similarity=0.561  Sum_probs=208.0

Q ss_pred             ccccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255            4 KGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus         4 ~~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .+++++.+|+.|   +++.|++.+|+.|++++..|+.+|+.+.- +..|-++|||+||||||||+||+++|.+.+..|+.
T Consensus       121 sAIv~EKPNVkW---sDVAGLE~AKeALKEAVILPIKFPqlFtG-kR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFS  196 (439)
T KOG0739|consen  121 SAIVREKPNVKW---SDVAGLEGAKEALKEAVILPIKFPQLFTG-KRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFS  196 (439)
T ss_pred             hhhhccCCCCch---hhhccchhHHHHHHhheeecccchhhhcC-CCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEE
Confidence            368999999999   88999999999999999999999998863 22344899999999999999999999999999999


Q ss_pred             EcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCc
Q 007255           84 ISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPH  162 (611)
Q Consensus        84 v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~~~~~  162 (611)
                      |+.+++.+.|.|++++.++.+|+.+...    +|+||||||||.++..+. +.++...++-..++-.|.+....   ...
T Consensus       197 vSSSDLvSKWmGESEkLVknLFemARe~----kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d---~~g  269 (439)
T KOG0739|consen  197 VSSSDLVSKWMGESEKLVKNLFEMAREN----KPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGND---NDG  269 (439)
T ss_pred             eehHHHHHHHhccHHHHHHHHHHHHHhc----CCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccC---CCc
Confidence            9999999999999999999999999866    599999999999998875 44566677888888888864432   336


Q ss_pred             EEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHH
Q 007255          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       163 v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                      |+|.++||-|+.+|.+++|  ||...|++|.|....|..+|+.++...+.. ...++.+++..|+||+|.||..+++.|.
T Consensus       270 vLVLgATNiPw~LDsAIRR--RFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeGySGsDisivVrDal  347 (439)
T KOG0739|consen  270 VLVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEGYSGSDISIVVRDAL  347 (439)
T ss_pred             eEEEecCCCchhHHHHHHH--HhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCCCCcCceEEEehhhh
Confidence            9999999999999999999  999999999999999999999998877644 4458999999999999999999999999


Q ss_pred             HHHhhhccc
Q 007255          242 MSAVKRSSD  250 (611)
Q Consensus       242 ~~a~~r~~~  250 (611)
                      ...+++.+.
T Consensus       348 mePvRkvqs  356 (439)
T KOG0739|consen  348 MEPVRKVQS  356 (439)
T ss_pred             hhhHHHhhh
Confidence            888887654

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.5e-34  Score=317.07  Aligned_cols=249  Identities=41%  Similarity=0.675  Sum_probs=223.9

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecchh
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAE  359 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~~~  359 (611)
                      ..++|++|+|++.++.+|++.+..|+.+++.|.++++.||+|+||+||||||||.+|+++|..+     ...|+.-++++
T Consensus       260 ~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD  339 (1080)
T KOG0732|consen  260 SSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGAD  339 (1080)
T ss_pred             cccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCch
Confidence            4578999999999999999999999999999999999999999999999999999999999888     56788889999


Q ss_pred             hccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCC
Q 007255          360 LYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP  439 (611)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~  439 (611)
                      ..++|+|+.+..++.+|+.|+..+|+|+|+||||.+++.|+.+   ....+..+++.||..|||+...+.++||||||+|
T Consensus       340 ~lskwvgEaERqlrllFeeA~k~qPSIIffdeIdGlapvrSsk---qEqih~SIvSTLLaLmdGldsRgqVvvigATnRp  416 (1080)
T KOG0732|consen  340 CLSKWVGEAERQLRLLFEEAQKTQPSIIFFDEIDGLAPVRSSK---QEQIHASIVSTLLALMDGLDSRGQVVVIGATNRP  416 (1080)
T ss_pred             hhccccCcHHHHHHHHHHHHhccCceEEeccccccccccccch---HHHhhhhHHHHHHHhccCCCCCCceEEEcccCCc
Confidence            9999999999999999999999999999999999999988543   3455778999999999999999999999999999


Q ss_pred             cccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccc
Q 007255          440 HAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISA  518 (611)
Q Consensus       440 ~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~  518 (611)
                      +.+|||++||||||+.++||+|+.+.|.+|+.++.++.... ...-+..+|+.+.||.|+||+.+|.+|+..++++..+.
T Consensus       417 da~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaLCTeAal~~~~r~~Pq  496 (1080)
T KOG0732|consen  417 DAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKALCTEAALIALRRSFPQ  496 (1080)
T ss_pred             cccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHHHHHHhhhhhccccCe
Confidence            99999999999999999999999999999999998887633 33447899999999999999999999999999886532


Q ss_pred             --------------ccccHHHHHHHHhhcCCC
Q 007255          519 --------------TAVRNRHFQTVKDSLKPA  536 (611)
Q Consensus       519 --------------~~i~~~~~~~~l~~~~~~  536 (611)
                                    ..+...||..|+.+..|+
T Consensus       497 ~y~s~~kl~~d~~~ikV~~~~f~~A~~~i~ps  528 (1080)
T KOG0732|consen  497 IYSSSDKLLIDVALIKVEVRDFVEAMSRITPS  528 (1080)
T ss_pred             eecccccccccchhhhhhhHhhhhhhhccCCC
Confidence                          135667777777666544

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=100.00  E-value=7.2e-34  Score=313.97  Aligned_cols=247  Identities=40%  Similarity=0.682  Sum_probs=225.6

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~  364 (611)
                      ....|+++.|.+..++.+.+.+.+ +..+..+..++...++|++|+||||||||++|+++|.+++.+|+.++++++...+
T Consensus       147 ~~~~~~di~g~~~~~~~l~~i~~~-~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~  225 (644)
T PRK10733        147 IKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMF  225 (644)
T ss_pred             hhCcHHHHcCHHHHHHHHHHHHHH-hhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhh
Confidence            356799999999999999998876 5667777888888889999999999999999999999999999999999999999


Q ss_pred             ccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccch
Q 007255          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDA  444 (611)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~  444 (611)
                      .|.....++.+|..++...||||||||+|.+..+|+...........+.+++||.+||++....+++||+|||+|+.+|+
T Consensus       226 ~g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~  305 (644)
T PRK10733        226 VGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDP  305 (644)
T ss_pred             hcccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCH
Confidence            99999999999999999999999999999999887654444445567899999999999988899999999999999999


Q ss_pred             hccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHH
Q 007255          445 ALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNR  524 (611)
Q Consensus       445 al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~  524 (611)
                      +++||||||+.|.|+.|+.++|.+||+.++++.++..++++..+|+.+.|||++||.++|++|+..|.++.  ...++..
T Consensus       306 Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~~d~~~la~~t~G~sgadl~~l~~eAa~~a~r~~--~~~i~~~  383 (644)
T PRK10733        306 ALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGN--KRVVSMV  383 (644)
T ss_pred             HHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCCcCCHHHHHhhCCCCCHHHHHHHHHHHHHHHHHcC--CCcccHH
Confidence            99999999999999999999999999999999998889999999999999999999999999999988764  5679999


Q ss_pred             HHHHHHhhcC
Q 007255          525 HFQTVKDSLK  534 (611)
Q Consensus       525 ~~~~~l~~~~  534 (611)
                      |+..++.++.
T Consensus       384 d~~~a~~~v~  393 (644)
T PRK10733        384 EFEKAKDKIM  393 (644)
T ss_pred             HHHHHHHHHh
Confidence            9999987663

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.7e-34  Score=269.44  Aligned_cols=244  Identities=33%  Similarity=0.592  Sum_probs=218.5

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      ....||+|++.+++.+.+.++.|+-+|+.|.+.|+++|++++|||+||||||.||+++|+.....|+.+-.+++...|.|
T Consensus       182 Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQkylG  261 (440)
T KOG0726|consen  182 ETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLG  261 (440)
T ss_pred             hhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHHHhc
Confidence            56699999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA  174 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~  174 (611)
                      +-.+.++++|..+...+    |+|+||||||.+...+- .++....++++.++.++.....-. ..+.|-+|.+||..+.
T Consensus       262 dGpklvRqlF~vA~e~a----pSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFd-srgDvKvimATnrie~  336 (440)
T KOG0726|consen  262 DGPKLVRELFRVAEEHA----PSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFD-SRGDVKVIMATNRIET  336 (440)
T ss_pred             cchHHHHHHHHHHHhcC----CceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCcc-ccCCeEEEEecccccc
Confidence            99999999999998776    99999999999987663 334445567776666665443322 3457999999999999


Q ss_pred             ccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccccccc
Q 007255          175 IDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANEC  254 (611)
Q Consensus       175 l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~  254 (611)
                      +||++.||||+++.|+|+.||...+..||+.+.....+..+++++.+...-+.++|.||.++|.+|...+++...     
T Consensus       337 LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs~Mtl~~dVnle~li~~kddlSGAdIkAictEaGllAlRerR-----  411 (440)
T KOG0726|consen  337 LDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTSRMTLAEDVNLEELIMTKDDLSGADIKAICTEAGLLALRERR-----  411 (440)
T ss_pred             cCHhhcCCCccccccccCCCchhhhceeEEEeecccchhccccHHHHhhcccccccccHHHHHHHHhHHHHHHHH-----
Confidence            999999999999999999999999999999999999999999999999999999999999999999999988543     


Q ss_pred             ccccchhHHHHHHHHhcc
Q 007255          255 AGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       255 ~~~~~v~~ed~~~a~~~i  272 (611)
                         +.++++||..+...+
T Consensus       412 ---m~vt~~DF~ka~e~V  426 (440)
T KOG0726|consen  412 ---MKVTMEDFKKAKEKV  426 (440)
T ss_pred             ---hhccHHHHHHHHHHH
Confidence               468999999887654

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.5e-33  Score=259.09  Aligned_cols=238  Identities=36%  Similarity=0.628  Sum_probs=213.9

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchH
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESE   98 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~   98 (611)
                      +=++|++.+++.+.+.++.|..+|+.+..+|+..|+++||+||||||||.+++++|....+.|+.++.+++...+.|+-.
T Consensus       147 eMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgselvqk~igegs  226 (404)
T KOG0728|consen  147 EMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQKYIGEGS  226 (404)
T ss_pred             HHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHHHHHhhhhH
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCC-CCchhhHHHHHHHHHHH---hcCCCCCCCCCcEEEEEeecCccc
Q 007255           99 KALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLM---DSNKPSKTSVPHVVVVASTNRVDA  174 (611)
Q Consensus        99 ~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~-~~~~~~~~~~~~ll~~l---~~~~~~~~~~~~v~ii~ttn~~~~  174 (611)
                      +.++++|-.+..++    |+|+|+||||.+...+. ++...+++++..++.++   |++..+    .++-+|.+||+.+-
T Consensus       227 rmvrelfvmareha----psiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeat----knikvimatnridi  298 (404)
T KOG0728|consen  227 RMVRELFVMAREHA----PSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEAT----KNIKVIMATNRIDI  298 (404)
T ss_pred             HHHHHHHHHHHhcC----CceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccc----cceEEEEecccccc
Confidence            99999999998886    99999999999998763 33334666776665554   444433    36899999999999


Q ss_pred             ccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccccccc
Q 007255          175 IDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANEC  254 (611)
Q Consensus       175 l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~  254 (611)
                      +||++.|+||+++.|+||+|+.+.|.+|++.+.++..+....+++.++....|-+|.++..+|.+|...+++..      
T Consensus       299 ld~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl~rgi~l~kiaekm~gasgaevk~vcteagm~alrer------  372 (404)
T KOG0728|consen  299 LDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLTRGINLRKIAEKMPGASGAEVKGVCTEAGMYALRER------  372 (404)
T ss_pred             ccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhchhcccCHHHHHHhCCCCccchhhhhhhhhhHHHHHHh------
Confidence            99999999999999999999999999999999999999999999999999999999999999999999998743      


Q ss_pred             ccccchhHHHHHHHHhcc
Q 007255          255 AGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       255 ~~~~~v~~ed~~~a~~~i  272 (611)
                        ...++.+||..+..++
T Consensus       373 --rvhvtqedfemav~kv  388 (404)
T KOG0728|consen  373 --RVHVTQEDFEMAVAKV  388 (404)
T ss_pred             --hccccHHHHHHHHHHH
Confidence              3468999998887654

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=100.00  E-value=3.2e-33  Score=289.93  Aligned_cols=249  Identities=32%  Similarity=0.555  Sum_probs=215.0

Q ss_pred             ccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 007255            6 RIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (611)
Q Consensus         6 ~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~   85 (611)
                      .+...++..|   ++|+|++.+++.|++.+..|+.+++.+..+|+.+|+++||+||||||||++++++|++++.+++.+.
T Consensus       135 ~~~~~p~v~~---~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~  211 (398)
T PTZ00454        135 QMSEKPDVTY---SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVV  211 (398)
T ss_pred             cccCCCCCCH---HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEe
Confidence            3445666666   8999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC-Cc---hhhHHHHHHHHHHHhcCCCCCCCCC
Q 007255           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RR---EQDVRIASQLFTLMDSNKPSKTSVP  161 (611)
Q Consensus        86 ~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~-~~---~~~~~~~~~ll~~l~~~~~~~~~~~  161 (611)
                      ++.+...+.|+....++.+|..+...    .|+||||||+|.++..+.. ..   ....+++..++..++....    ..
T Consensus       212 ~s~l~~k~~ge~~~~lr~lf~~A~~~----~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~----~~  283 (398)
T PTZ00454        212 GSEFVQKYLGEGPRMVRDVFRLAREN----APSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQ----TT  283 (398)
T ss_pred             hHHHHHHhcchhHHHHHHHHHHHHhc----CCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCC----CC
Confidence            99988889999888999999887644    5999999999999876522 11   1223455566666665432    23


Q ss_pred             cEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHH
Q 007255          162 HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       162 ~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                      ++.+|++||.++.+||++.|+|||+..|+|+.|+.++|..||+.++.+..+..+.++..++..++||+|+||.++|++|.
T Consensus       284 ~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd~~~la~~t~g~sgaDI~~l~~eA~  363 (398)
T PTZ00454        284 NVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAG  363 (398)
T ss_pred             CEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999988888899999999999999999999999999


Q ss_pred             HHHhhhcccccccccccchhHHHHHHHHhccC
Q 007255          242 MSAVKRSSDANECAGVLSVTMEDWRHARSVVG  273 (611)
Q Consensus       242 ~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~  273 (611)
                      ..++++..        ..++.+||..+...+.
T Consensus       364 ~~A~r~~~--------~~i~~~df~~A~~~v~  387 (398)
T PTZ00454        364 MQAVRKNR--------YVILPKDFEKGYKTVV  387 (398)
T ss_pred             HHHHHcCC--------CccCHHHHHHHHHHHH
Confidence            99887643        3688999999877653

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=100.00  E-value=4.1e-32  Score=300.95  Aligned_cols=404  Identities=19%  Similarity=0.249  Sum_probs=268.8

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEcc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVISP   86 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~~   86 (611)
                      .++.++|.+..+..+.+++..             ..++++||+||||||||++++.++..+          +..++.++.
T Consensus       184 ~~~~liGR~~ei~~~i~iL~r-------------~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~  250 (758)
T PRK11034        184 GIDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDI  250 (758)
T ss_pred             CCCcCcCCCHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccH
Confidence            457788888888888876643             235788999999999999999999875          445566655


Q ss_pred             cccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           87 HSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        87 ~~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      ..+.  ..+.|+.+..++.++..+...    .++||||||+|.+++.+.... ....+.+.|...+..        +.+.
T Consensus       251 ~~llaG~~~~Ge~e~rl~~l~~~l~~~----~~~ILfIDEIh~L~g~g~~~~-g~~d~~nlLkp~L~~--------g~i~  317 (758)
T PRK11034        251 GSLLAGTKYRGDFEKRFKALLKQLEQD----TNSILFIDEIHTIIGAGAASG-GQVDAANLIKPLLSS--------GKIR  317 (758)
T ss_pred             HHHhcccchhhhHHHHHHHHHHHHHhc----CCCEEEeccHHHHhccCCCCC-cHHHHHHHHHHHHhC--------CCeE
Confidence            5544  356778888888888877532    478999999999987654211 122344444445542        3589


Q ss_pred             EEEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCccc-----HHHHHHhccCCc-----
Q 007255          165 VVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-----LEAIATSCNGYV-----  229 (611)
Q Consensus       165 ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~-----~~~la~~~~g~~-----  229 (611)
                      +|++||..+     ..|+++.|  ||. .|.++.|+.+++..|++.+...+....++.     +...+..+..|.     
T Consensus       318 vIgATt~~E~~~~~~~D~AL~r--RFq-~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~l  394 (758)
T PRK11034        318 VIGSTTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHL  394 (758)
T ss_pred             EEecCChHHHHHHhhccHHHHh--hCc-EEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccC
Confidence            999999864     56999999  996 899999999999999998766554433332     444555555542     


Q ss_pred             cccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhccCCcccccccc-------cCCCcccccccchhHHHHHH
Q 007255          230 GADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTV-------EIPKVTWEDIGGLRDLKKKL  302 (611)
Q Consensus       230 ~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~~~~~~~-------~~~~~~~~~i~g~~~~k~~l  302 (611)
                      +.....++++|+....-  ....  .....++.+|+.................       .....--..|+|++++++.+
T Consensus       395 PdKaidlldea~a~~~~--~~~~--~~~~~v~~~~i~~v~~~~tgip~~~~~~~~~~~l~~l~~~L~~~ViGQ~~ai~~l  470 (758)
T PRK11034        395 PDKAIDVIDEAGARARL--MPVS--KRKKTVNVADIESVVARIARIPEKSVSQSDRDTLKNLGDRLKMLVFGQDKAIEAL  470 (758)
T ss_pred             hHHHHHHHHHHHHhhcc--Cccc--ccccccChhhHHHHHHHHhCCChhhhhhhHHHHHHHHHHHhcceEeCcHHHHHHH
Confidence            23456777777653311  0000  0112355566655544322111100000       00011123589999999999


Q ss_pred             HHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc-----c-------cccchHH
Q 007255          303 QQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-----M-------YVGESEA  370 (611)
Q Consensus       303 ~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~-----~-------~~g~~~~  370 (611)
                      .+.+........   . ..+|..++||+||||||||.+|+++|..++.+++.++++++..     +       |+|....
T Consensus       471 ~~~i~~~~~gl~---~-~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~LiG~~~gyvg~~~~  546 (758)
T PRK11034        471 TEAIKMSRAGLG---H-EHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQG  546 (758)
T ss_pred             HHHHHHHhcccc---C-CCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHcCCCCCccccccc
Confidence            998864211000   0 1234457999999999999999999999999999999887643     1       2222111


Q ss_pred             HHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--C-------CCCeEEEEecCCC--
Q 007255          371 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--Q-------AKGILVLAATNRP--  439 (611)
Q Consensus       371 ~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--~-------~~~~~vI~~tn~~--  439 (611)
                        ..+.+..+..+.+||||||+|.+              +..+.+.|++.||...  .       -.+++||+|||.-  
T Consensus       547 --g~L~~~v~~~p~sVlllDEieka--------------~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~g~~  610 (758)
T PRK11034        547 --GLLTDAVIKHPHAVLLLDEIEKA--------------HPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVR  610 (758)
T ss_pred             --chHHHHHHhCCCcEEEeccHhhh--------------hHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCcCHH
Confidence              12333445556689999999987              3568899999997421  1       1368899999932  


Q ss_pred             -----------------------cccchhccCCCCccceeecCCCCHHHHHHHHHHHhc
Q 007255          440 -----------------------HAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTR  475 (611)
Q Consensus       440 -----------------------~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~  475 (611)
                                             ..+.|.|+.  |+|.+|.|++.+.++..+|+...+.
T Consensus       611 ~~~~~~~g~~~~~~~~~~~~~~~~~f~pefl~--Rid~ii~f~~L~~~~l~~I~~~~l~  667 (758)
T PRK11034        611 ETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIV  667 (758)
T ss_pred             HHhhcccCcccchhhHHHHHHHHHhcCHHHHc--cCCEEEEcCCCCHHHHHHHHHHHHH
Confidence                                   124466666  9999999999999999999986543

>CHL00206 ycf2 Ycf2; Provisional

Probab=100.00  E-value=1.1e-33  Score=322.19  Aligned_cols=210  Identities=18%  Similarity=0.257  Sum_probs=179.9

Q ss_pred             hhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc----------cc----------------
Q 007255          313 STAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY----------VG----------------  366 (611)
Q Consensus       313 ~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~----------~g----------------  366 (611)
                      .....++|..+|+|+||+||||||||++|+|+|.++++||+.++++++..++          +|                
T Consensus      1619 kP~slrLGl~pPKGILLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~ 1698 (2281)
T CHL00206       1619 KPFSLRLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLD 1698 (2281)
T ss_pred             cCHHHHcCCCCCCceEEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhhcccccccccccccccccccccccccccccc
Confidence            4455788999999999999999999999999999999999999999998754          12                


Q ss_pred             ---------------chHH--HHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC---C
Q 007255          367 ---------------ESEA--LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE---Q  426 (611)
Q Consensus       367 ---------------~~~~--~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---~  426 (611)
                                     ..+.  .++.+|+.|+..+||||||||||.+..+.         .....+++|+++|++..   .
T Consensus      1699 ~e~~e~~n~~~~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~~d---------s~~ltL~qLLneLDg~~~~~s 1769 (2281)
T CHL00206       1699 TELLTMMNALTMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNVNE---------SNYLSLGLLVNSLSRDCERCS 1769 (2281)
T ss_pred             hhhhhhcchhhhhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCCCc---------cceehHHHHHHHhccccccCC
Confidence                           1222  38889999999999999999999996541         11224789999999763   4


Q ss_pred             CCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHH--hcCCCCCCc-ccHHHHHHhCCCCCHHHHHHH
Q 007255          427 AKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVH--TRNMKVGDD-VDLRSIAEETELFTGAELEGL  503 (611)
Q Consensus       427 ~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~--~~~~~~~~~-~~~~~la~~~~g~s~~~i~~~  503 (611)
                      ..+++||||||+|+.+||||+||||||+.|+++.|+..+|.+++...  .+++....+ +++..+|+.|.|||||||.++
T Consensus      1770 ~~~VIVIAATNRPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADLanL 1849 (2281)
T CHL00206       1770 TRNILVIASTHIPQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSITMGSNARDLVAL 1849 (2281)
T ss_pred             CCCEEEEEeCCCcccCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhhcCCCCCcccccHHHHHHhCCCCCHHHHHHH
Confidence            56899999999999999999999999999999999999999998854  455665543 689999999999999999999


Q ss_pred             HHHHHHHHHHhhcccccccHHHHHHHHhhc
Q 007255          504 CREAGIVALREDISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       504 ~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~  533 (611)
                      |++|+..|+++.  ...|+..++..|+.+.
T Consensus      1850 vNEAaliAirq~--ks~Id~~~I~~Al~Rq 1877 (2281)
T CHL00206       1850 TNEALSISITQK--KSIIDTNTIRSALHRQ 1877 (2281)
T ss_pred             HHHHHHHHHHcC--CCccCHHHHHHHHHHH
Confidence            999999999885  6679999999999765

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=5.9e-33  Score=304.71  Aligned_cols=385  Identities=31%  Similarity=0.445  Sum_probs=295.2

Q ss_pred             cccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC-----cE
Q 007255            7 IMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HL   81 (611)
Q Consensus         7 ~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~-----~~   81 (611)
                      +++-.......|++++|++.++..|++.+..|+.+++.+..+++.+|+++||+||||||||..++++|..+..     .+
T Consensus       253 ~dp~~~~~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisf  332 (1080)
T KOG0732|consen  253 SDPLSVDSSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISF  332 (1080)
T ss_pred             cCchhhhcccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccch
Confidence            3444555567889999999999999999999999999999999999999999999999999999999998843     33


Q ss_pred             EEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC-CchhhHHHHHHHHHHHhcCCCCCCCC
Q 007255           82 TVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSV  160 (611)
Q Consensus        82 ~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~  160 (611)
                      +.-...+..+.|.|+.++.++.+|+++...    +|+|+|+||||-|+|.+.. .......+...|+.+|++...    .
T Consensus       333 fmrkgaD~lskwvgEaERqlrllFeeA~k~----qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGlds----R  404 (1080)
T KOG0732|consen  333 FMRKGADCLSKWVGEAERQLRLLFEEAQKT----QPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDS----R  404 (1080)
T ss_pred             hhhcCchhhccccCcHHHHHHHHHHHHhcc----CceEEeccccccccccccchHHHhhhhHHHHHHHhccCCCC----C
Confidence            444556777899999999999999999854    6999999999999998843 344566788999999998653    4


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHH
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCRE  239 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~  239 (611)
                      +.|++|++||+++.+||+++|+|||++.++|+.|+.+.|.+|+..+...+... ...-+..++..+.||.|.|++.+|.+
T Consensus       405 gqVvvigATnRpda~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaLCTe  484 (1080)
T KOG0732|consen  405 GQVVVIGATNRPDAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKALCTE  484 (1080)
T ss_pred             CceEEEcccCCccccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHHHHH
Confidence            47999999999999999999999999999999999999999999988877633 22347889999999999999999999


Q ss_pred             HHHHHhhhcccc--------cccccccchhHHHHHHHHhccCCccccccccc-CCCccccc-ccchhHHHHHHHHHhh--
Q 007255          240 ATMSAVKRSSDA--------NECAGVLSVTMEDWRHARSVVGPSITRGVTVE-IPKVTWED-IGGLRDLKKKLQQAVE--  307 (611)
Q Consensus       240 a~~~a~~r~~~~--------~~~~~~~~v~~ed~~~a~~~i~~~~~~~~~~~-~~~~~~~~-i~g~~~~k~~l~~~~~--  307 (611)
                      |...++++.--.        ........+...||..+...+.|+..+..... .|....-. +.+.......++..+.  
T Consensus       485 Aal~~~~r~~Pq~y~s~~kl~~d~~~ikV~~~~f~~A~~~i~ps~~R~~~~~s~Pl~~~~~~ll~~~~~~~~iq~~~~va  564 (1080)
T KOG0732|consen  485 AALIALRRSFPQIYSSSDKLLIDVALIKVEVRDFVEAMSRITPSSRRSSVIFSRPLSTYLKPLLPFQDALEDIQGLMDVA  564 (1080)
T ss_pred             HhhhhhccccCeeecccccccccchhhhhhhHhhhhhhhccCCCCCccccCCCCCCCcceecccchHHHHHHhhcchhHH
Confidence            999988764211        12233445788899999999888877743322 22111111 1112222222222111  


Q ss_pred             -----------ccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-CCcEEeecchhhcccc-ccchHHHHHH
Q 007255          308 -----------WPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-EASFFSLSGAELYSMY-VGESEALLRN  374 (611)
Q Consensus       308 -----------~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-~~~~~~~~~~~~~~~~-~g~~~~~~~~  374 (611)
                                 +.+...+..-...+--...+++.|..|.|=+.+..|+-+.+ +.++..+..+.++... .++.+..+..
T Consensus       565 ~~~~k~~e~~~~~v~~~e~~~~i~lic~~~lli~~~~~~g~~~lg~aIlh~~~~~~v~s~~issll~d~~~~~~~~~iv~  644 (1080)
T KOG0732|consen  565 SSMAKIEEHLKLLVRSFESNFAIRLICRPRLLINGGKGSGQDYLGPAILHRLEGLPVQSLDISSLLSDEGTEDLEEEIVH  644 (1080)
T ss_pred             hhhhhHHHHhHHHHHhhhcccchhhhcCcHHhcCCCcccccCcccHHHHHHHhccchHHHHHHHHHhccccccHHHHHHH
Confidence                       10000000000011112358899999999999999998887 6777778777777755 6667889999


Q ss_pred             HHHHHHhcCCcEEEEcccccccccC
Q 007255          375 TFQRARLAAPSIIFFDEADVVGAKR  399 (611)
Q Consensus       375 ~~~~a~~~~p~il~iDeid~l~~~~  399 (611)
                      +|..++...|||+||-++|.+....
T Consensus       645 i~~eaR~~~psi~~ip~~d~w~~~~  669 (1080)
T KOG0732|consen  645 IFMEARKTTPSIVFIPNVDEWARVI  669 (1080)
T ss_pred             HHHHHhccCCceeeccchhhhhhcC
Confidence            9999999999999999999876443

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=100.00  E-value=5e-33  Score=257.16  Aligned_cols=237  Identities=32%  Similarity=0.538  Sum_probs=202.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      -.++|++|++++|+.-.-++.+ +..|+.+..   =.|+++||+||||||||++|+++|++.+.+++.+.+.++...+.|
T Consensus       118 it~ddViGqEeAK~kcrli~~y-LenPe~Fg~---WAPknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVG  193 (368)
T COG1223         118 ITLDDVIGQEEAKRKCRLIMEY-LENPERFGD---WAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVG  193 (368)
T ss_pred             ccHhhhhchHHHHHHHHHHHHH-hhChHHhcc---cCcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhh
Confidence            5789999999999887665554 555555543   358999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC--chhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR--REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD  173 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~--~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~  173 (611)
                      +..+.++.+|+.+...+    |||+||||+|.++-++..+  ...-++++++|++.||+...    ...|+.|++||+++
T Consensus       194 dgar~Ihely~rA~~~a----PcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~e----neGVvtIaaTN~p~  265 (368)
T COG1223         194 DGARRIHELYERARKAA----PCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKE----NEGVVTIAATNRPE  265 (368)
T ss_pred             hHHHHHHHHHHHHHhcC----CeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCccc----CCceEEEeecCChh
Confidence            99999999999998775    9999999999998776432  22345788999999998663    33689999999999


Q ss_pred             cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHH-HHHHHHHHHHhhhccccc
Q 007255          174 AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLE-ALCREATMSAVKRSSDAN  252 (611)
Q Consensus       174 ~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~-~l~~~a~~~a~~r~~~~~  252 (611)
                      .+|+++++  ||...|+|..|+.++|..|++.+.+.+++.-+.+++.++..+.|+||+||. .++..|.+.++....+  
T Consensus       266 ~LD~aiRs--RFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~~~~~~~~t~g~SgRdikekvlK~aLh~Ai~ed~e--  341 (368)
T COG1223         266 LLDPAIRS--RFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLAAKTKGMSGRDIKEKVLKTALHRAIAEDRE--  341 (368)
T ss_pred             hcCHHHHh--hhhheeeeeCCChHHHHHHHHHHHHhCCCccccCHHHHHHHhCCCCchhHHHHHHHHHHHHHHHhchh--
Confidence            99999999  999999999999999999999999999999999999999999999999986 4666777777765443  


Q ss_pred             ccccccchhHHHHHHHHhccCC
Q 007255          253 ECAGVLSVTMEDWRHARSVVGP  274 (611)
Q Consensus       253 ~~~~~~~v~~ed~~~a~~~i~~  274 (611)
                            .+..+|+..+..+..+
T Consensus       342 ------~v~~edie~al~k~r~  357 (368)
T COG1223         342 ------KVEREDIEKALKKERK  357 (368)
T ss_pred             ------hhhHHHHHHHHHhhcc
Confidence                  5778888888775433

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3.9e-33  Score=272.26  Aligned_cols=227  Identities=36%  Similarity=0.593  Sum_probs=202.7

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCC-CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGL-KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~-~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~   94 (611)
                      ..++||+|++.+++.|++.+..|+.+++.+...++ +++++|||+||||||||++|+++|++.+.+|+.|+.+.+.+.++
T Consensus        89 v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~KWf  168 (386)
T KOG0737|consen   89 VSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSKWF  168 (386)
T ss_pred             eehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccccchhhH
Confidence            44599999999999999999999999999975443 68899999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc
Q 007255           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD  173 (611)
Q Consensus        95 ~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~  173 (611)
                      |+..+.++.+|.-+...    +|+||||||+|.+...+.. ..+.....-++++...|+......  ..|+|+|+||+|.
T Consensus       169 gE~eKlv~AvFslAsKl----~P~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s~~~--~rVlVlgATNRP~  242 (386)
T KOG0737|consen  169 GEAQKLVKAVFSLASKL----QPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKDS--ERVLVLGATNRPF  242 (386)
T ss_pred             HHHHHHHHHHHhhhhhc----CcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCCC--ceEEEEeCCCCCc
Confidence            99999999999988744    5999999999999887732 233444566788888887665432  3599999999999


Q ss_pred             cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccc
Q 007255          174 AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD  250 (611)
Q Consensus       174 ~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~  250 (611)
                      ++|.++.|  |+...++++.|+..+|.+|++..++...++.++|+..++..|+||+|+||.++|+.|....++....
T Consensus       243 DlDeAiiR--R~p~rf~V~lP~~~qR~kILkviLk~e~~e~~vD~~~iA~~t~GySGSDLkelC~~Aa~~~ire~~~  317 (386)
T KOG0737|consen  243 DLDEAIIR--RLPRRFHVGLPDAEQRRKILKVILKKEKLEDDVDLDEIAQMTEGYSGSDLKELCRLAALRPIRELLV  317 (386)
T ss_pred             cHHHHHHH--hCcceeeeCCCchhhHHHHHHHHhcccccCcccCHHHHHHhcCCCcHHHHHHHHHHHhHhHHHHHHH
Confidence            99999999  9999999999999999999999999999999999999999999999999999999999988886654

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=6.2e-33  Score=297.30  Aligned_cols=240  Identities=38%  Similarity=0.592  Sum_probs=216.2

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      ..|.|+.|.+++|++|++++.+ +.+|+.|.++|.+.|+++||+||||||||.||+++|.+.+.+|+.++++++...+.|
T Consensus       308 V~FkDVAG~deAK~El~E~V~f-LKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~~~g  386 (774)
T KOG0731|consen  308 VKFKDVAGVDEAKEELMEFVKF-LKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEMFVG  386 (774)
T ss_pred             CccccccCcHHHHHHHHHHHHH-hcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHHhcc
Confidence            5679999999999999999976 899999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCC-----CCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeec
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-----HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~-----~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn  170 (611)
                      .-..+++++|..++...    |||+||||||.+...+.     +.+......+++|+..||.+...    ..|+++++||
T Consensus       387 ~~asrvr~lf~~ar~~a----P~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~----~~vi~~a~tn  458 (774)
T KOG0731|consen  387 VGASRVRDLFPLARKNA----PSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETS----KGVIVLAATN  458 (774)
T ss_pred             cchHHHHHHHHHhhccC----CeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCC----CcEEEEeccC
Confidence            88999999999998665    99999999999998773     33445567889999999987654    3699999999


Q ss_pred             CcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcc
Q 007255          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSS  249 (611)
Q Consensus       171 ~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~  249 (611)
                      +++-+|++++|+|||++.|+++.|+...|.+|++.++...... .+.++..++..|.||+|.||.++|++|...+.++..
T Consensus       459 r~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~neaa~~a~r~~~  538 (774)
T KOG0731|consen  459 RPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCNEAALLAARKGL  538 (774)
T ss_pred             CccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhhHHHHHHHHhcc
Confidence            9999999999999999999999999999999999999988875 777888899999999999999999999999988654


Q ss_pred             cccccccccchhHHHHHHHHhcc
Q 007255          250 DANECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       250 ~~~~~~~~~~v~~ed~~~a~~~i  272 (611)
                      .        .+...++..+...+
T Consensus       539 ~--------~i~~~~~~~a~~Rv  553 (774)
T KOG0731|consen  539 R--------EIGTKDLEYAIERV  553 (774)
T ss_pred             C--------ccchhhHHHHHHHH
Confidence            3        46777777776643

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=100.00  E-value=3.6e-32  Score=284.09  Aligned_cols=255  Identities=38%  Similarity=0.622  Sum_probs=217.8

Q ss_pred             cccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255            5 GRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus         5 ~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      +.+...++..|   ++|+|++++++.|.+.+..|+.+++.+...|+.+|+++||+||||||||++|+++|++++.+++.+
T Consensus       120 ~~~~~~p~~~~---~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v  196 (389)
T PRK03992        120 MEVIESPNVTY---EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRV  196 (389)
T ss_pred             eeecCCCCCCH---HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEe
Confidence            44556667777   789999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCc-hhhHHHHHH---HHHHHhcCCCCCCCC
Q 007255           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQDVRIASQ---LFTLMDSNKPSKTSV  160 (611)
Q Consensus        85 ~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~-~~~~~~~~~---ll~~l~~~~~~~~~~  160 (611)
                      +++++...+.|.....++.+|..+...    .|+||||||+|.++..+.... ..+..++..   ++..++...    ..
T Consensus       197 ~~~~l~~~~~g~~~~~i~~~f~~a~~~----~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~----~~  268 (389)
T PRK03992        197 VGSELVQKFIGEGARLVRELFELAREK----APSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFD----PR  268 (389)
T ss_pred             ehHHHhHhhccchHHHHHHHHHHHHhc----CCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccC----CC
Confidence            999999889999889999999887654    499999999999987654221 112233334   444444332    22


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHH
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      .++.||+|||.++.+|+++.|++||+..|+|++|+.++|.+|++.++....+..+.++..++..++||+|+|+..+|++|
T Consensus       269 ~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~~~~la~~t~g~sgadl~~l~~eA  348 (389)
T PRK03992        269 GNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEA  348 (389)
T ss_pred             CCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHH
Confidence            36899999999999999999999999999999999999999999999988888888999999999999999999999999


Q ss_pred             HHHHhhhcccccccccccchhHHHHHHHHhccCCcccc
Q 007255          241 TMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITR  278 (611)
Q Consensus       241 ~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~~~  278 (611)
                      ...+++...        ..++.+||..|...+.+....
T Consensus       349 ~~~a~~~~~--------~~i~~~d~~~A~~~~~~~~~~  378 (389)
T PRK03992        349 GMFAIRDDR--------TEVTMEDFLKAIEKVMGKEEK  378 (389)
T ss_pred             HHHHHHcCC--------CCcCHHHHHHHHHHHhccccc
Confidence            999887632        358999999999888776544

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=5e-33  Score=257.81  Aligned_cols=251  Identities=32%  Similarity=0.560  Sum_probs=220.2

Q ss_pred             ccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 007255            6 RIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (611)
Q Consensus         6 ~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~   85 (611)
                      .+.+.+++.+   ++++|..++++.|++.++.|+.+++.+-.+|+.+|+++|+|||||||||..++++|+..+..|+.+-
T Consensus       167 ~veekpdvty---~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvi  243 (435)
T KOG0729|consen  167 QVEEKPDVTY---SDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVI  243 (435)
T ss_pred             EeecCCCccc---ccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeeh
Confidence            3455566666   8999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCC-CCCchhhHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        86 ~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~-~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      .+++...|.|+-.+.++++|+.+...    +-||+|+||+|.+...+ +.+...+.+++..++.++..... ..+.+++-
T Consensus       244 gselvqkyvgegarmvrelf~martk----kaciiffdeidaiggarfddg~ggdnevqrtmleli~qldg-fdprgnik  318 (435)
T KOG0729|consen  244 GSELVQKYVGEGARMVRELFEMARTK----KACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDG-FDPRGNIK  318 (435)
T ss_pred             hHHHHHHHhhhhHHHHHHHHHHhccc----ceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccC-CCCCCCeE
Confidence            99999999999999999999988743    57999999999998765 44445566778777776655433 23556899


Q ss_pred             EEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHH
Q 007255          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSA  244 (611)
Q Consensus       165 ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a  244 (611)
                      ++.+||+|+.+||++.|+||.++.++|..|+.+-|..||+.+.+......+..++.++..|..-+|.+|+.+|.+|...+
T Consensus       319 vlmatnrpdtldpallrpgrldrkvef~lpdlegrt~i~kihaksmsverdir~ellarlcpnstgaeirsvcteagmfa  398 (435)
T KOG0729|consen  319 VLMATNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFA  398 (435)
T ss_pred             EEeecCCCCCcCHhhcCCcccccceeccCCcccccceeEEEeccccccccchhHHHHHhhCCCCcchHHHHHHHHhhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             hhhcccccccccccchhHHHHHHHHhcc
Q 007255          245 VKRSSDANECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       245 ~~r~~~~~~~~~~~~v~~ed~~~a~~~i  272 (611)
                      ++....        ..++.||..+..++
T Consensus       399 irarrk--------~atekdfl~av~kv  418 (435)
T KOG0729|consen  399 IRARRK--------VATEKDFLDAVNKV  418 (435)
T ss_pred             HHHHhh--------hhhHHHHHHHHHHH
Confidence            774332        46778887776544

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.4e-32  Score=285.18  Aligned_cols=231  Identities=35%  Similarity=0.607  Sum_probs=214.0

Q ss_pred             ccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccc
Q 007255            8 MSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (611)
Q Consensus         8 ~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~   87 (611)
                      ..+++..|   ++|+|+.++++.|.+.+.+|-.++..+...+++.+.+||||||||||||.+|.++|...+..|+.+...
T Consensus       659 ~k~tgi~w---~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGP  735 (952)
T KOG0735|consen  659 VKSTGIRW---EDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGP  735 (952)
T ss_pred             cccCCCCc---eecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCH
Confidence            45667888   889999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC-chhhHHHHHHHHHHHhcCCCCCCCCCcEEEE
Q 007255           88 SVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQDVRIASQLFTLMDSNKPSKTSVPHVVVV  166 (611)
Q Consensus        88 ~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii  166 (611)
                      ++.+.|.|.+++.++.+|..+...    +|||||+||+|.++|.++.. .....+++++|++.||+...    ...|.|+
T Consensus       736 ElL~KyIGaSEq~vR~lF~rA~~a----~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Eg----l~GV~i~  807 (952)
T KOG0735|consen  736 ELLSKYIGASEQNVRDLFERAQSA----KPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEG----LDGVYIL  807 (952)
T ss_pred             HHHHHHhcccHHHHHHHHHHhhcc----CCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccc----cceEEEE
Confidence            999999999999999999998744    69999999999999988643 34566899999999998664    3369999


Q ss_pred             EeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhh
Q 007255          167 ASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVK  246 (611)
Q Consensus       167 ~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~  246 (611)
                      ++|.+|+.+||+++||||+++.++.+.|+..+|.+|++.+......+.+++++.+|..|+||+|.|+..++-.|...++.
T Consensus       808 aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~~~~vdl~~~a~~T~g~tgADlq~ll~~A~l~avh  887 (952)
T KOG0735|consen  808 AATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLKDTDVDLECLAQKTDGFTGADLQSLLYNAQLAAVH  887 (952)
T ss_pred             EecCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCCccccchHHHhhhcCCCchhhHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999988887


Q ss_pred             hcc
Q 007255          247 RSS  249 (611)
Q Consensus       247 r~~  249 (611)
                      +..
T Consensus       888 ~~l  890 (952)
T KOG0735|consen  888 EIL  890 (952)
T ss_pred             HHH
Confidence            654

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=100.00  E-value=2.7e-32  Score=308.42  Aligned_cols=251  Identities=49%  Similarity=0.759  Sum_probs=230.2

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      .+.++|++|+|++.+++.+.+.+..|+.+++.+.++|+.+++++|||||||||||++|+++|++++.+++.++++++.++
T Consensus       172 ~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~  251 (733)
T TIGR01243       172 VPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSK  251 (733)
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhcc
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccc
Q 007255          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAID  443 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld  443 (611)
                      |.|.++..++.+|..+....|+||||||+|.+.++++...   .....+++++|+..|+++...++++||++||+|+.+|
T Consensus       252 ~~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~---~~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~~~ld  328 (733)
T TIGR01243       252 YYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVT---GEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALD  328 (733)
T ss_pred             cccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCc---chHHHHHHHHHHHHhhccccCCCEEEEeecCChhhcC
Confidence            9999999999999999999999999999999998764322   2345788999999999988888999999999999999


Q ss_pred             hhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcc------
Q 007255          444 AALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDIS------  517 (611)
Q Consensus       444 ~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~------  517 (611)
                      ++++|+|||+..+.++.|+.++|.+||+.+.+++.+..++++..+++.++||+++++..+|++|...++++.+.      
T Consensus       329 ~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~d~~l~~la~~t~G~~gadl~~l~~~a~~~al~r~~~~~~~~~  408 (733)
T TIGR01243       329 PALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIREGKINF  408 (733)
T ss_pred             HHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCccccCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHhhcccccc
Confidence            99999999999999999999999999999999998888899999999999999999999999999998877543      


Q ss_pred             -----------cccccHHHHHHHHhhcCCCC
Q 007255          518 -----------ATAVRNRHFQTVKDSLKPAL  537 (611)
Q Consensus       518 -----------~~~i~~~~~~~~l~~~~~~~  537 (611)
                                 ...++..||..++..++|+.
T Consensus       409 ~~~~i~~~~~~~~~v~~~df~~Al~~v~ps~  439 (733)
T TIGR01243       409 EAEEIPAEVLKELKVTMKDFMEALKMVEPSA  439 (733)
T ss_pred             ccccccchhcccccccHHHHHHHHhhccccc
Confidence                       12467889999998887763

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=100.00  E-value=1.8e-32  Score=270.48  Aligned_cols=170  Identities=21%  Similarity=0.236  Sum_probs=149.4

Q ss_pred             cCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHHh-----cCCcEEEEcccc
Q 007255          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARL-----AAPSIIFFDEAD  393 (611)
Q Consensus       319 ~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~-----~~p~il~iDeid  393 (611)
                      .++++|++++||||||||||++|+++|++++++++.++++++.++|.|+++++++.+|..|+.     .+||||||||||
T Consensus       143 ~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a~~~~aPcVLFIDEID  222 (413)
T PLN00020        143 PNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGEPGKLIRQRYREAADIIKKKGKMSCLFINDLD  222 (413)
T ss_pred             cCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHhhccCCCeEEEEehhh
Confidence            578999999999999999999999999999999999999999999999999999999999975     469999999999


Q ss_pred             cccccCCCCCCCCcchhHHHH-HHHHHHhcCC------------CCCCCeEEEEecCCCcccchhccCCCCccceeecCC
Q 007255          394 VVGAKRGGSSSTSITVGERLL-STLLTEMDGL------------EQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPP  460 (611)
Q Consensus       394 ~l~~~~~~~~~~~~~~~~~~~-~~ll~~l~~~------------~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~  460 (611)
                      .+++.++.   .+....++++ .+|+++||+.            +...+++||+|||+|+.||++|+||||||+.+  +.
T Consensus       223 A~~g~r~~---~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRfDk~i--~l  297 (413)
T PLN00020        223 AGAGRFGT---TQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKFY--WA  297 (413)
T ss_pred             hcCCCCCC---CCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCCCCCcee--CC
Confidence            99998863   2234445665 7999998863            34567999999999999999999999999865  58


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCC
Q 007255          461 PDLEARHEILRVHTRNMKVGDDVDLRSIAEETEL  494 (611)
Q Consensus       461 p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g  494 (611)
                      |+.++|..||+.++++..+. .+++..|+..+.|
T Consensus       298 Pd~e~R~eIL~~~~r~~~l~-~~dv~~Lv~~f~g  330 (413)
T PLN00020        298 PTREDRIGVVHGIFRDDGVS-REDVVKLVDTFPG  330 (413)
T ss_pred             CCHHHHHHHHHHHhccCCCC-HHHHHHHHHcCCC
Confidence            99999999999999987765 5778888888766

>CHL00195 ycf46 Ycf46; Provisional

Probab=100.00  E-value=1.6e-31  Score=282.82  Aligned_cols=239  Identities=29%  Similarity=0.394  Sum_probs=205.1

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      ..+++|+|++.+|+.+.+....   +.......|+.+|+++||+||||||||++|+++|++++.+++.++++.+.+.+.|
T Consensus       225 ~~~~dvgGl~~lK~~l~~~~~~---~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~vG  301 (489)
T CHL00195        225 EKISDIGGLDNLKDWLKKRSTS---FSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVG  301 (489)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHH---hhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccccC
Confidence            4679999999999999875432   3445567899999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCC--CCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD--HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD  173 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~--~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~  173 (611)
                      +++..++.+|..+...    .||||||||+|.++....  +.+....++...++..++...      .++++|+|||.++
T Consensus       302 ese~~l~~~f~~A~~~----~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~------~~V~vIaTTN~~~  371 (489)
T CHL00195        302 ESESRMRQMIRIAEAL----SPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKK------SPVFVVATANNID  371 (489)
T ss_pred             hHHHHHHHHHHHHHhc----CCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCC------CceEEEEecCChh
Confidence            9999999999887654    499999999999887533  223345677788888887522      2589999999999


Q ss_pred             cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC--CcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccc
Q 007255          174 AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD--ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA  251 (611)
Q Consensus       174 ~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~--~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~  251 (611)
                      .+|+++.|+|||+..++++.|+.++|.+||+.++.+....  .+.++..++..|+||+|+||+++|.+|+..+....   
T Consensus       372 ~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~lv~eA~~~A~~~~---  448 (489)
T CHL00195        372 LLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFYEK---  448 (489)
T ss_pred             hCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHHHHHHHHHHHHcC---
Confidence            9999999999999999999999999999999999886543  46789999999999999999999999998887643   


Q ss_pred             cccccccchhHHHHHHHHhccCCcc
Q 007255          252 NECAGVLSVTMEDWRHARSVVGPSI  276 (611)
Q Consensus       252 ~~~~~~~~v~~ed~~~a~~~i~~~~  276 (611)
                            ..++.+|+..+...+.|..
T Consensus       449 ------~~lt~~dl~~a~~~~~Pls  467 (489)
T CHL00195        449 ------REFTTDDILLALKQFIPLA  467 (489)
T ss_pred             ------CCcCHHHHHHHHHhcCCCc
Confidence                  2478999999999888864

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=100.00  E-value=1.2e-31  Score=279.38  Aligned_cols=247  Identities=34%  Similarity=0.577  Sum_probs=211.8

Q ss_pred             cccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 007255            7 IMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (611)
Q Consensus         7 ~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~   86 (611)
                      +...+...|   ++|+|++++++.|.+++..|+.++..+..+|+.+|.++||+||||||||++++++|++++.+++.+..
T Consensus       174 ~~~~p~~~~---~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~  250 (438)
T PTZ00361        174 VDKAPLESY---ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVG  250 (438)
T ss_pred             cccCCCCCH---HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEec
Confidence            444555555   88999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC-chhh---HHHHHHHHHHHhcCCCCCCCCCc
Q 007255           87 HSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQD---VRIASQLFTLMDSNKPSKTSVPH  162 (611)
Q Consensus        87 ~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~-~~~~---~~~~~~ll~~l~~~~~~~~~~~~  162 (611)
                      +++...+.|.....++.+|..+...    .|+||||||+|.++..+... ....   .+.+..++..++....    ..+
T Consensus       251 seL~~k~~Ge~~~~vr~lF~~A~~~----~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~----~~~  322 (438)
T PTZ00361        251 SELIQKYLGDGPKLVRELFRVAEEN----APSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDS----RGD  322 (438)
T ss_pred             chhhhhhcchHHHHHHHHHHHHHhC----CCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcc----cCC
Confidence            9998889999888899999887643    59999999999998765321 1112   2334455566665432    235


Q ss_pred             EEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHH
Q 007255          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATM  242 (611)
Q Consensus       163 v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~  242 (611)
                      +.||++||.++.+|+++.|++||+..|+|+.|+.++|.+||+.++.+..+..+.++..++..+.|++|+|+..+|.+|..
T Consensus       323 V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvdl~~la~~t~g~sgAdI~~i~~eA~~  402 (438)
T PTZ00361        323 VKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGL  402 (438)
T ss_pred             eEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCcCHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999998888888899999999999999999999999999


Q ss_pred             HHhhhcccccccccccchhHHHHHHHHhcc
Q 007255          243 SAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       243 ~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i  272 (611)
                      .|+++..        ..++.+||..|...+
T Consensus       403 ~Alr~~r--------~~Vt~~D~~~A~~~v  424 (438)
T PTZ00361        403 LALRERR--------MKVTQADFRKAKEKV  424 (438)
T ss_pred             HHHHhcC--------CccCHHHHHHHHHHH
Confidence            9987643        358899999887765

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=99.98  E-value=4.3e-31  Score=287.02  Aligned_cols=254  Identities=41%  Similarity=0.639  Sum_probs=227.1

Q ss_pred             ccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 007255            6 RIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (611)
Q Consensus         6 ~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~   85 (611)
                      .....+++.|   ++++|++.+++.+++.+..|+..++.+...+++++.++||+||||||||++++++|.+++.+|+.+.
T Consensus       232 ~~~~~~~v~~---~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~  308 (494)
T COG0464         232 VLFEDEDVTL---DDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVK  308 (494)
T ss_pred             cccCCCCcce---ehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEee
Confidence            3445667777   8899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchh-hHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQ-DVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        86 ~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~-~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      .+++.+.+.|++++.++.+|..+...    .||||||||+|.+++.+...... ..+++.+++..++......    +|+
T Consensus       309 ~~~l~sk~vGesek~ir~~F~~A~~~----~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~----~v~  380 (494)
T COG0464         309 GSELLSKWVGESEKNIRELFEKARKL----APSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAE----GVL  380 (494)
T ss_pred             CHHHhccccchHHHHHHHHHHHHHcC----CCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccC----ceE
Confidence            99999999999999999999999855    49999999999999988654433 3589999999998765433    589


Q ss_pred             EEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCC--CCcccHHHHHHhccCCccccHHHHHHHHHH
Q 007255          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPL--DANVDLEAIATSCNGYVGADLEALCREATM  242 (611)
Q Consensus       165 ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~--~~~~~~~~la~~~~g~~~~dl~~l~~~a~~  242 (611)
                      +|++||.++.+|+++.|+|||+..+++++|+.++|.+||+.++.....  ..+.++..++..++||+|.|+..+|++|..
T Consensus       381 vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~ea~~  460 (494)
T COG0464         381 VIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAAL  460 (494)
T ss_pred             EEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999986544  577899999999999999999999999999


Q ss_pred             HHhhhcccccccccccchhHHHHHHHHhccCCccc
Q 007255          243 SAVKRSSDANECAGVLSVTMEDWRHARSVVGPSIT  277 (611)
Q Consensus       243 ~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~~  277 (611)
                      .+++...       ...++.+||..+...+.|+..
T Consensus       461 ~~~~~~~-------~~~~~~~~~~~a~~~~~p~~~  488 (494)
T COG0464         461 EALREAR-------RREVTLDDFLDALKKIKPSVT  488 (494)
T ss_pred             HHHHHhc-------cCCccHHHHHHHHHhcCCCCC
Confidence            9988664       346889999999988777643

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.97  E-value=1.5e-29  Score=286.30  Aligned_cols=437  Identities=19%  Similarity=0.238  Sum_probs=278.2

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC----------CcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG----------AHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~----------~~~~~v~   85 (611)
                      ..+++++|+++.+..+.+.+..             +..++++|+||||||||++++.+|+.+.          ..++.++
T Consensus       184 ~~ld~~iGr~~ei~~~i~~l~r-------------~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~  250 (852)
T TIGR03345       184 GKIDPVLGRDDEIRQMIDILLR-------------RRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLD  250 (852)
T ss_pred             CCCCcccCCHHHHHHHHHHHhc-------------CCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEee
Confidence            5678999999988887776533             2446899999999999999999999872          4566676


Q ss_pred             ccccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        86 ~~~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      .+.+.  ..+.|+.+..++.+++.+...   +.++||||||+|.+.+.+...+..  ...+.|...+..        +.+
T Consensus       251 l~~l~ag~~~~ge~e~~lk~ii~e~~~~---~~~~ILfIDEih~l~~~g~~~~~~--d~~n~Lkp~l~~--------G~l  317 (852)
T TIGR03345       251 LGLLQAGASVKGEFENRLKSVIDEVKAS---PQPIILFIDEAHTLIGAGGQAGQG--DAANLLKPALAR--------GEL  317 (852)
T ss_pred             hhhhhcccccchHHHHHHHHHHHHHHhc---CCCeEEEEeChHHhccCCCccccc--cHHHHhhHHhhC--------CCe
Confidence            66654  357788889999999988642   357899999999998765432222  223344444443        358


Q ss_pred             EEEEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-----CcccHHHHHHhccCCccc--
Q 007255          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-----ANVDLEAIATSCNGYVGA--  231 (611)
Q Consensus       164 ~ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-----~~~~~~~la~~~~g~~~~--  231 (611)
                      .+|++|+..+     .+|++|.|  ||. .|.+++|+.+++..|++.+...+...     .+..+..++..+.+|...  
T Consensus       318 ~~IgaTT~~e~~~~~~~d~AL~r--Rf~-~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~~r~  394 (852)
T TIGR03345       318 RTIAATTWAEYKKYFEKDPALTR--RFQ-VVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQ  394 (852)
T ss_pred             EEEEecCHHHHhhhhhccHHHHH--hCe-EEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHccccccccc
Confidence            8999998743     58999999  995 89999999999999987665443221     233477778888777432  


Q ss_pred             ---cHHHHHHHHHHHH-hhhcccc---------------------cc-----ccc----cc-------------------
Q 007255          232 ---DLEALCREATMSA-VKRSSDA---------------------NE-----CAG----VL-------------------  258 (611)
Q Consensus       232 ---dl~~l~~~a~~~a-~~r~~~~---------------------~~-----~~~----~~-------------------  258 (611)
                         -.-.++++|+... +......                     .+     ...    .+                   
T Consensus       395 LPDKAIdlldea~a~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  474 (852)
T TIGR03345       395 LPDKAVSLLDTACARVALSQNATPAALEDLRRRIAALELELDALEREAALGADHDERLAELRAELAALEAELAALEARWQ  474 (852)
T ss_pred             CccHHHHHHHHHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               1233444443211 1100000                     00     000    00                   


Q ss_pred             -----------------------------------------------------chhHHHHHHHHhccCCcccccccccCC
Q 007255          259 -----------------------------------------------------SVTMEDWRHARSVVGPSITRGVTVEIP  285 (611)
Q Consensus       259 -----------------------------------------------------~v~~ed~~~a~~~i~~~~~~~~~~~~~  285 (611)
                                                                           .++.+|+......       ..  .+|
T Consensus       475 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~i~~vv~~-------~t--gip  545 (852)
T TIGR03345       475 QEKELVEAILALRAELEADADAPADDDAALRAQLAELEAALASAQGEEPLVFPEVDAQAVAEVVAD-------WT--GIP  545 (852)
T ss_pred             HHHHHHHHHHHHHHHhhhcccchhhhhHHHHHHHHHHHHHHHHHhhccccccceecHHHHHHHHHH-------HH--CCC
Confidence                                                                 0000000000000       00  011


Q ss_pred             Cc----------------ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-
Q 007255          286 KV----------------TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-  348 (611)
Q Consensus       286 ~~----------------~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-  348 (611)
                      ..                --..|+|++.+.+.+.+.+......-.    .+.+|...+||+||||||||.+|+++|..+ 
T Consensus       546 ~~~~~~~e~~~l~~l~~~L~~~v~GQ~~Av~~v~~~i~~~~~gl~----~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~  621 (852)
T TIGR03345       546 VGRMVRDEIEAVLSLPDRLAERVIGQDHALEAIAERIRTARAGLE----DPRKPLGVFLLVGPSGVGKTETALALAELLY  621 (852)
T ss_pred             chhhchhHHHHHHHHHHHhcCeEcChHHHHHHHHHHHHHHhcCCC----CCCCCceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            10                013578898888888887764211000    011222348999999999999999999998 


Q ss_pred             --CCcEEeecchhhccc------------cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          349 --EASFFSLSGAELYSM------------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       349 --~~~~~~~~~~~~~~~------------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                        ...++.++++++...            |+|..+..  .+....+..+.+||+|||++..              +..+.
T Consensus       622 ~~~~~~~~~dmse~~~~~~~~~l~g~~~gyvg~~~~g--~L~~~v~~~p~svvllDEieka--------------~~~v~  685 (852)
T TIGR03345       622 GGEQNLITINMSEFQEAHTVSRLKGSPPGYVGYGEGG--VLTEAVRRKPYSVVLLDEVEKA--------------HPDVL  685 (852)
T ss_pred             CCCcceEEEeHHHhhhhhhhccccCCCCCcccccccc--hHHHHHHhCCCcEEEEechhhc--------------CHHHH
Confidence              457889998876432            44433221  2344556677899999999865              35677


Q ss_pred             HHHHHHhcCCC---------CCCCeEEEEecCCCc-----------------------------ccchhccCCCCcccee
Q 007255          415 STLLTEMDGLE---------QAKGILVLAATNRPH-----------------------------AIDAALMRPGRFDLVL  456 (611)
Q Consensus       415 ~~ll~~l~~~~---------~~~~~~vI~~tn~~~-----------------------------~ld~al~r~gRf~~~i  456 (611)
                      +.|+..+|...         .-.+.+||+|||...                             .+.|+|+.  |++ +|
T Consensus       686 ~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNlg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEfln--Ri~-iI  762 (852)
T TIGR03345       686 ELFYQVFDKGVMEDGEGREIDFKNTVILLTSNAGSDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLG--RMT-VI  762 (852)
T ss_pred             HHHHHHhhcceeecCCCcEEeccccEEEEeCCCchHHHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhc--cee-EE
Confidence            88888887432         014688999998522                             13455665  998 89


Q ss_pred             ecCCCCHHHHHHHHHHHhcCC--------CCC---CcccHHHHHHhCCC--CCHHHHHHHHHHHHHHHHH
Q 007255          457 YVPPPDLEARHEILRVHTRNM--------KVG---DDVDLRSIAEETEL--FTGAELEGLCREAGIVALR  513 (611)
Q Consensus       457 ~~~~p~~~~r~~il~~~~~~~--------~~~---~~~~~~~la~~~~g--~s~~~i~~~~~~a~~~a~~  513 (611)
                      .|.+.+.++..+|++..+...        ++.   ++..++.|+....+  |-.+.++.+++.-...++-
T Consensus       763 ~F~pLs~e~l~~Iv~~~L~~l~~rl~~~~gi~l~i~d~a~~~La~~g~~~~~GAR~L~r~Ie~~i~~~la  832 (852)
T TIGR03345       763 PYLPLDDDVLAAIVRLKLDRIARRLKENHGAELVYSEALVEHIVARCTEVESGARNIDAILNQTLLPELS  832 (852)
T ss_pred             EeCCCCHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHHcCCCCCChHHHHHHHHHHHHHHHH
Confidence            999999999999998654331        221   22335677776643  5577888877765554443

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=2.4e-31  Score=280.85  Aligned_cols=244  Identities=39%  Similarity=0.574  Sum_probs=222.1

Q ss_pred             cccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccc
Q 007255           13 EKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA   92 (611)
Q Consensus        13 ~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~   92 (611)
                      ....+|+|+.|.+++|+.+.+.+.. +..|..|.++|.+.|++++|+||||||||.+|+++|.+.+.+|+.++.+++...
T Consensus       144 ~~~v~F~DVAG~dEakeel~EiVdf-Lk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVem  222 (596)
T COG0465         144 QVKVTFADVAGVDEAKEELSELVDF-LKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEM  222 (596)
T ss_pred             ccCcChhhhcCcHHHHHHHHHHHHH-HhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhh
Confidence            4457889999999999999999876 888999999999999999999999999999999999999999999999999999


Q ss_pred             cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCC----CCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEe
Q 007255           93 HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD----HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (611)
Q Consensus        93 ~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~----~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t  168 (611)
                      +.|.-...++++|.+++..+    |||+||||+|.+...+.    +++......+++|+..||.+...    ..|+++++
T Consensus       223 fVGvGAsRVRdLF~qAkk~a----P~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~----~gviviaa  294 (596)
T COG0465         223 FVGVGASRVRDLFEQAKKNA----PCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGN----EGVIVIAA  294 (596)
T ss_pred             hcCCCcHHHHHHHHHhhccC----CCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCC----CceEEEec
Confidence            99999999999999998665    99999999999998874    44555667889999999987632    35999999


Q ss_pred             ecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhc
Q 007255          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRS  248 (611)
Q Consensus       169 tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~  248 (611)
                      ||+++-+|++|.|+|||++.+.++.||...|.+|++.+.+..++..++++..+++.|.|++|.|+.+++++|...+.++.
T Consensus       295 TNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl~~iAr~tpGfsGAdL~nl~NEAal~aar~n  374 (596)
T COG0465         295 TNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSGADLANLLNEAALLAARRN  374 (596)
T ss_pred             CCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCHHHHhhhCCCcccchHhhhHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999998876


Q ss_pred             ccccccccccchhHHHHHHHHhccC
Q 007255          249 SDANECAGVLSVTMEDWRHARSVVG  273 (611)
Q Consensus       249 ~~~~~~~~~~~v~~ed~~~a~~~i~  273 (611)
                      ..        .+++.++..+..++-
T Consensus       375 ~~--------~i~~~~i~ea~drv~  391 (596)
T COG0465         375 KK--------EITMRDIEEAIDRVI  391 (596)
T ss_pred             Ce--------eEeccchHHHHHHHh
Confidence            53        577888888877653

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.97  E-value=2.9e-29  Score=285.69  Aligned_cols=442  Identities=21%  Similarity=0.252  Sum_probs=279.9

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEcc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVISP   86 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~~   86 (611)
                      .+++++|.++.++.+.+++..             +.+++++|+||||||||++++.+|..+          +..++.++.
T Consensus       177 ~~~~~igr~~ei~~~~~~L~r-------------~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~  243 (821)
T CHL00095        177 NLDPVIGREKEIERVIQILGR-------------RTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDI  243 (821)
T ss_pred             CCCCCCCcHHHHHHHHHHHcc-------------cccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeH
Confidence            468899999999999988743             245789999999999999999999987          367888888


Q ss_pred             cccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           87 HSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        87 ~~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      +.+.  ..+.|+.+..++.+++.+...    .++||||||+|.+...+...+.  ....+.|...+..        +.+.
T Consensus       244 ~~l~ag~~~~ge~e~rl~~i~~~~~~~----~~~ILfiDEih~l~~~g~~~g~--~~~a~lLkp~l~r--------g~l~  309 (821)
T CHL00095        244 GLLLAGTKYRGEFEERLKRIFDEIQEN----NNIILVIDEVHTLIGAGAAEGA--IDAANILKPALAR--------GELQ  309 (821)
T ss_pred             HHHhccCCCccHHHHHHHHHHHHHHhc----CCeEEEEecHHHHhcCCCCCCc--ccHHHHhHHHHhC--------CCcE
Confidence            7765  467788999999999988643    4789999999999876543222  2334444455543        2578


Q ss_pred             EEEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcC----CCCC-CcccHHHHHHhccCCccc---
Q 007255          165 VVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK----VPLD-ANVDLEAIATSCNGYVGA---  231 (611)
Q Consensus       165 ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~----~~~~-~~~~~~~la~~~~g~~~~---  231 (611)
                      +|++|+..+     ..|+++.+  ||. .+.++.|+.++...|++.....    .... .+..+..++..+.+|...   
T Consensus       310 ~IgaTt~~ey~~~ie~D~aL~r--Rf~-~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~~r~l  386 (821)
T CHL00095        310 CIGATTLDEYRKHIEKDPALER--RFQ-PVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRFL  386 (821)
T ss_pred             EEEeCCHHHHHHHHhcCHHHHh--cce-EEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCccccC
Confidence            899998754     46899998  996 6899999999999998754322    2222 233467777777777542   


Q ss_pred             --cHHHHHHHHHHHH-hhhcccccc------------------------------------------------------c
Q 007255          232 --DLEALCREATMSA-VKRSSDANE------------------------------------------------------C  254 (611)
Q Consensus       232 --dl~~l~~~a~~~a-~~r~~~~~~------------------------------------------------------~  254 (611)
                        ..-.++++|+... +........                                                      .
T Consensus       387 Pdkaidlld~a~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  466 (821)
T CHL00095        387 PDKAIDLLDEAGSRVRLINSRLPPAARELDKELREILKDKDEAIREQDFETAKQLRDREMEVRAQIAAIIQSKKTEEEKR  466 (821)
T ss_pred             chHHHHHHHHHHHHHHhhccCCchhHHHHHHHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence              2334445444322 110000000                                                      0


Q ss_pred             ccccchhHHHHHHHHhccCCcccccccc-------cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCc
Q 007255          255 AGVLSVTMEDWRHARSVVGPSITRGVTV-------EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGA  327 (611)
Q Consensus       255 ~~~~~v~~ed~~~a~~~i~~~~~~~~~~-------~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~  327 (611)
                      .....++.+|+.................       .....--+.|+||+.+.+.+...+......-   . -..+|..++
T Consensus       467 ~~~~~v~~~~i~~~~~~~tgip~~~~~~~~~~~l~~l~~~L~~~v~GQ~~ai~~l~~~i~~~~~gl---~-~~~~p~~~~  542 (821)
T CHL00095        467 LEVPVVTEEDIAEIVSAWTGIPVNKLTKSESEKLLHMEETLHKRIIGQDEAVVAVSKAIRRARVGL---K-NPNRPIASF  542 (821)
T ss_pred             ccCCccCHHHHHHHHHHHHCCCchhhchhHHHHHHHHHHHhcCcCcChHHHHHHHHHHHHHHhhcc---c-CCCCCceEE
Confidence            0001123333322222111000000000       0000112457899999999988776321100   0 012334568


Q ss_pred             ceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc------------cccchHHHHHHHHHHHHhcCCcEEEEccc
Q 007255          328 LLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM------------YVGESEALLRNTFQRARLAAPSIIFFDEA  392 (611)
Q Consensus       328 Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~------------~~g~~~~~~~~~~~~a~~~~p~il~iDei  392 (611)
                      ||+||+|||||++|+++|..+   +.+++.++++++...            |+|..+.  ..+...++..+.+|++|||+
T Consensus       543 lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~~~l~g~~~gyvg~~~~--~~l~~~~~~~p~~VvllDei  620 (821)
T CHL00095        543 LFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTVSKLIGSPPGYVGYNEG--GQLTEAVRKKPYTVVLFDEI  620 (821)
T ss_pred             EEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccHHHhcCCCCcccCcCcc--chHHHHHHhCCCeEEEECCh
Confidence            999999999999999999988   467888888876432            3332221  23445556566689999999


Q ss_pred             ccccccCCCCCCCCcchhHHHHHHHHHHhcCCC---------CCCCeEEEEecCCCcc----------------------
Q 007255          393 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE---------QAKGILVLAATNRPHA----------------------  441 (611)
Q Consensus       393 d~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~~~vI~~tn~~~~----------------------  441 (611)
                      |..              +..+.+.|++.||...         ...+++||+|||....                      
T Consensus       621 eka--------------~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~g~~~i~~~~~~~gf~~~~~~~~~~~  686 (821)
T CHL00095        621 EKA--------------HPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNLGSKVIETNSGGLGFELSENQLSEKQ  686 (821)
T ss_pred             hhC--------------CHHHHHHHHHHhccCceecCCCcEEecCceEEEEeCCcchHHHHhhccccCCccccccccccc
Confidence            976              3668899999998531         1246899999985321                      


Q ss_pred             ---------------cchhccCCCCccceeecCCCCHHHHHHHHHHHhcCC-------CCC---CcccHHHHHHhC--CC
Q 007255          442 ---------------IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNM-------KVG---DDVDLRSIAEET--EL  494 (611)
Q Consensus       442 ---------------ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~-------~~~---~~~~~~~la~~~--~g  494 (611)
                                     +.|.|+.  |+|.+|.|.+.+.++..+|++..+..+       ++.   ++...+.|++..  ..
T Consensus       687 ~~~~~~~~~~~~~~~f~pefln--Rid~ii~F~pL~~~~l~~Iv~~~l~~l~~rl~~~~i~l~~~~~~~~~La~~~~~~~  764 (821)
T CHL00095        687 YKRLSNLVNEELKQFFRPEFLN--RLDEIIVFRQLTKNDVWEIAEIMLKNLFKRLNEQGIQLEVTERIKTLLIEEGYNPL  764 (821)
T ss_pred             HHHHHHHHHHHHHHhcCHHHhc--cCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHCCcEEEECHHHHHHHHHhcCCCC
Confidence                           1234555  999999999999999999998665432       111   122245555542  23


Q ss_pred             CCHHHHHHHHHHHHHH
Q 007255          495 FTGAELEGLCREAGIV  510 (611)
Q Consensus       495 ~s~~~i~~~~~~a~~~  510 (611)
                      |-.+.++.+++.-...
T Consensus       765 ~GAR~l~r~i~~~i~~  780 (821)
T CHL00095        765 YGARPLRRAIMRLLED  780 (821)
T ss_pred             CChhhHHHHHHHHHHH
Confidence            4456666666544433

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.97  E-value=7.7e-30  Score=276.06  Aligned_cols=242  Identities=39%  Similarity=0.576  Sum_probs=209.3

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      .+|++++|++++++.+.+++.. +..++.+...|..+|+++||+||||||||++++++|.+++.+++.++++++...+.+
T Consensus        52 ~~~~di~g~~~~k~~l~~~~~~-l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~~~g  130 (495)
T TIGR01241        52 VTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVG  130 (495)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHHHhc
Confidence            4569999999999999998876 788888999999999999999999999999999999999999999999999888888


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~----~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~  171 (611)
                      .....++.+|+.+...    .|+||||||+|.++..+..    ........+++++..++.....    .+++||++||.
T Consensus       131 ~~~~~l~~~f~~a~~~----~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~----~~v~vI~aTn~  202 (495)
T TIGR01241       131 VGASRVRDLFEQAKKN----APCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN----TGVIVIAATNR  202 (495)
T ss_pred             ccHHHHHHHHHHHHhc----CCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC----CCeEEEEecCC
Confidence            8889999999988754    4999999999999876643    1233446677888888765432    35899999999


Q ss_pred             cccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccc
Q 007255          172 VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA  251 (611)
Q Consensus       172 ~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~  251 (611)
                      ++.+|++++|++||+..++++.|+.++|.+|++.++.......+.++..++..+.||+++||.++|++|...+.++..  
T Consensus       203 ~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~~~l~~la~~t~G~sgadl~~l~~eA~~~a~~~~~--  280 (495)
T TIGR01241       203 PDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAALLAARKNK--  280 (495)
T ss_pred             hhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcchhHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCC--
Confidence            999999999999999999999999999999999999888777778899999999999999999999999877765432  


Q ss_pred             cccccccchhHHHHHHHHhccCC
Q 007255          252 NECAGVLSVTMEDWRHARSVVGP  274 (611)
Q Consensus       252 ~~~~~~~~v~~ed~~~a~~~i~~  274 (611)
                            ..++.+|+..+...+..
T Consensus       281 ------~~i~~~~l~~a~~~~~~  297 (495)
T TIGR01241       281 ------TEITMNDIEEAIDRVIA  297 (495)
T ss_pred             ------CCCCHHHHHHHHHHHhc
Confidence                  25888999988876543

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.97  E-value=2.5e-29  Score=265.37  Aligned_cols=223  Identities=31%  Similarity=0.540  Sum_probs=180.2

Q ss_pred             ccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc-------
Q 007255            8 MSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------   80 (611)
Q Consensus         8 ~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-------   80 (611)
                      ...++..|   ++|+|++.+++.+.+.+..|+.+++.+...|+.+|+++||+||||||||++++++|++++.+       
T Consensus       174 ~~~p~v~~---~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~  250 (512)
T TIGR03689       174 EEVPDVTY---ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGD  250 (512)
T ss_pred             ecCCCCCH---HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCC
Confidence            34455555   88999999999999999999999999999999999999999999999999999999998654       


Q ss_pred             ---EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC--CchhhHHHHHHHHHHHhcCCC
Q 007255           81 ---LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH--RREQDVRIASQLFTLMDSNKP  155 (611)
Q Consensus        81 ---~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~--~~~~~~~~~~~ll~~l~~~~~  155 (611)
                         ++.+..+++...+.|+++..++.+|..+......++|+||||||+|.++..++.  .++....++.+|+..++....
T Consensus       251 ~~~fl~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~  330 (512)
T TIGR03689       251 KSYFLNIKGPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVES  330 (512)
T ss_pred             ceeEEeccchhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhccccc
Confidence               556666778888999999999999999887665667999999999999987643  234455677889999987543


Q ss_pred             CCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCC-CCCCcccHHHHHHhccCCccccHH
Q 007255          156 SKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV-PLDANVDLEAIATSCNGYVGADLE  234 (611)
Q Consensus       156 ~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~-~~~~~~~~~~la~~~~g~~~~dl~  234 (611)
                      .    +++++|++||+++.|||+++|+|||+.+|+|+.|+.++|.+||+.++... +.  +    .....+.|+++.++.
T Consensus       331 ~----~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~~l~l--~----~~l~~~~g~~~a~~~  400 (512)
T TIGR03689       331 L----DNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTDSLPL--D----ADLAEFDGDREATAA  400 (512)
T ss_pred             C----CceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhccCCc--h----HHHHHhcCCCHHHHH
Confidence            2    36899999999999999999999999999999999999999999987642 22  1    112224455555555


Q ss_pred             HHHHHHHHH
Q 007255          235 ALCREATMS  243 (611)
Q Consensus       235 ~l~~~a~~~  243 (611)
                      .++++++..
T Consensus       401 al~~~av~~  409 (512)
T TIGR03689       401 ALIQRAVDH  409 (512)
T ss_pred             HHHHHHHHH
Confidence            555554433

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.97  E-value=2.4e-29  Score=262.20  Aligned_cols=247  Identities=40%  Similarity=0.635  Sum_probs=206.8

Q ss_pred             ccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 007255            6 RIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (611)
Q Consensus         6 ~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~   85 (611)
                      .+.+.++..|   ++|+|++++++.|.+.+..|+.+++.+..+|+.+|.++||+||||||||++++++|++++.+++.+.
T Consensus       112 ~~~~~p~~~~---~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~  188 (364)
T TIGR01242       112 EVEERPNVSY---EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVV  188 (364)
T ss_pred             eeccCCCCCH---HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecc
Confidence            3445555666   7899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC-chhhHHHHHH---HHHHHhcCCCCCCCCC
Q 007255           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQDVRIASQ---LFTLMDSNKPSKTSVP  161 (611)
Q Consensus        86 ~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~-~~~~~~~~~~---ll~~l~~~~~~~~~~~  161 (611)
                      ++.+...+.+.....++.+|..+...    .|+||||||+|.+...+... ...+...+..   ++..++...    ..+
T Consensus       189 ~~~l~~~~~g~~~~~i~~~f~~a~~~----~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~----~~~  260 (364)
T TIGR01242       189 GSELVRKYIGEGARLVREIFELAKEK----APSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFD----PRG  260 (364)
T ss_pred             hHHHHHHhhhHHHHHHHHHHHHHHhc----CCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCC----CCC
Confidence            88888888888888888888876543    48999999999998654321 1122233334   444444332    123


Q ss_pred             cEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHH
Q 007255          162 HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       162 ~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                      ++.+|+|||.++.+|+++.+++||+..++|+.|+.++|.+|++.+.....+..+.++..++..++||+|+|+..+|++|.
T Consensus       261 ~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~~~~la~~t~g~sg~dl~~l~~~A~  340 (364)
T TIGR01242       261 NVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICTEAG  340 (364)
T ss_pred             CEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCCHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            68999999999999999999999999999999999999999999998888777788999999999999999999999999


Q ss_pred             HHHhhhcccccccccccchhHHHHHHHHhc
Q 007255          242 MSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (611)
Q Consensus       242 ~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~  271 (611)
                      ..++++..        ..++.+||..+...
T Consensus       341 ~~a~~~~~--------~~i~~~d~~~a~~~  362 (364)
T TIGR01242       341 MFAIREER--------DYVTMDDFIKAVEK  362 (364)
T ss_pred             HHHHHhCC--------CccCHHHHHHHHHH
Confidence            99987643        35888999888664

Many proteins may score above the trusted cutoff because an internal

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=2.7e-30  Score=245.23  Aligned_cols=242  Identities=36%  Similarity=0.590  Sum_probs=211.7

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~   96 (611)
                      .+++++|.-.+..++.+.+..|+..+..+..+|+.+|.+++||||||||||.+++++|..++++++.+.++.+.+.+.|+
T Consensus       130 s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~kyiGE  209 (388)
T KOG0651|consen  130 SFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKYIGE  209 (388)
T ss_pred             CHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhhccc
Confidence            67999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccc
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l  175 (611)
                      +.+.+++.|..+....    ||||||||||.....+. .+...+.+++..|++++++...- ...++|-+|+|+|+++.|
T Consensus       210 saRlIRemf~yA~~~~----pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgf-d~l~rVk~ImatNrpdtL  284 (388)
T KOG0651|consen  210 SARLIRDMFRYAREVI----PCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGF-DTLHRVKTIMATNRPDTL  284 (388)
T ss_pred             HHHHHHHHHHHHhhhC----ceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccc-hhcccccEEEecCCcccc
Confidence            9999999999998775    99999999999887653 23344567788888877754332 234578999999999999


Q ss_pred             cHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccc
Q 007255          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECA  255 (611)
Q Consensus       176 ~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~  255 (611)
                      +|+|.|+||+++.+.+|.|+...|..|++.+..........+.+.+.+..+|++|.++.+.|.+|...+.+...+     
T Consensus       285 dpaLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~~d~f~gad~rn~~tEag~Fa~~~~~~-----  359 (388)
T KOG0651|consen  285 DPALLRPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKLVDGFNGADLRNVCTEAGMFAIPEERD-----  359 (388)
T ss_pred             chhhcCCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHHHhccChHHHhhhcccccccccchhhH-----
Confidence            999999999999999999999999999998888888778888999999999999999999999998666554322     


Q ss_pred             cccchhHHHHHHHHhc
Q 007255          256 GVLSVTMEDWRHARSV  271 (611)
Q Consensus       256 ~~~~v~~ed~~~a~~~  271 (611)
                         .+..+|+..+...
T Consensus       360 ---~vl~Ed~~k~vrk  372 (388)
T KOG0651|consen  360 ---EVLHEDFMKLVRK  372 (388)
T ss_pred             ---HHhHHHHHHHHHH
Confidence               4556677665544

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.97  E-value=9.4e-28  Score=274.04  Aligned_cols=439  Identities=21%  Similarity=0.273  Sum_probs=277.3

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~   85 (611)
                      ..++.++|+++.+..+.+.+..             +..++++|+||||||||++++.+|..+          +.+++.++
T Consensus       170 ~~~~~~igr~~ei~~~~~~l~r-------------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~  236 (852)
T TIGR03346       170 GKLDPVIGRDEEIRRTIQVLSR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALD  236 (852)
T ss_pred             CCCCcCCCcHHHHHHHHHHHhc-------------CCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEee
Confidence            4678899999998888887643             244788999999999999999999986          56777777


Q ss_pred             ccccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        86 ~~~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      .+.+.  ..+.|+.+..++.+++.+...   ..++||||||+|.+.+.+...+.  ....+.|...+.        .+.+
T Consensus       237 ~~~l~a~~~~~g~~e~~l~~~l~~~~~~---~~~~ILfIDEih~l~~~g~~~~~--~d~~~~Lk~~l~--------~g~i  303 (852)
T TIGR03346       237 MGALIAGAKYRGEFEERLKAVLNEVTKS---EGQIILFIDELHTLVGAGKAEGA--MDAGNMLKPALA--------RGEL  303 (852)
T ss_pred             HHHHhhcchhhhhHHHHHHHHHHHHHhc---CCCeEEEeccHHHhhcCCCCcch--hHHHHHhchhhh--------cCce
Confidence            76654  456788888899998877532   35889999999999865432221  223333333332        2358


Q ss_pred             EEEEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-----cccHHHHHHhccCCccc--
Q 007255          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-----NVDLEAIATSCNGYVGA--  231 (611)
Q Consensus       164 ~ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-----~~~~~~la~~~~g~~~~--  231 (611)
                      .+|++|+..+     ..|+++.|  ||. .+.++.|+.+++..|++.+...+....     +..+...+..+.+|...  
T Consensus       304 ~~IgaTt~~e~r~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~~~d~~i~~~~~ls~~yi~~r~  380 (852)
T TIGR03346       304 HCIGATTLDEYRKYIEKDAALER--RFQ-PVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYITDRF  380 (852)
T ss_pred             EEEEeCcHHHHHHHhhcCHHHHh--cCC-EEEeCCCCHHHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhccccccccC
Confidence            8999998864     57999999  996 689999999999999998766544332     23466667777666432  


Q ss_pred             ---cHHHHHHHHHHHHhhh-cccc---------------------ccccc----c-------------------------
Q 007255          232 ---DLEALCREATMSAVKR-SSDA---------------------NECAG----V-------------------------  257 (611)
Q Consensus       232 ---dl~~l~~~a~~~a~~r-~~~~---------------------~~~~~----~-------------------------  257 (611)
                         -.-.++++|+...... ....                     .....    .                         
T Consensus       381 lPdkAidlld~a~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  460 (852)
T TIGR03346       381 LPDKAIDLIDEAAARIRMEIDSKPEELDELDRRIIQLEIEREALKKEKDEASKERLEDLEKELAELEEEYADLEEQWKAE  460 (852)
T ss_pred             CchHHHHHHHHHHHHHHhhccCCchhHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               2233444444221100 0000                     00000    0                         


Q ss_pred             -----------------------------------------------------------------cchhHHHHHHHHhcc
Q 007255          258 -----------------------------------------------------------------LSVTMEDWRHARSVV  272 (611)
Q Consensus       258 -----------------------------------------------------------------~~v~~ed~~~a~~~i  272 (611)
                                                                                       ..++.+|+.......
T Consensus       461 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~v~~~~i~~v~~~~  540 (852)
T TIGR03346       461 KAAIQGIQQIKEEIEQVRLELEQAEREGDLAKAAELQYGKLPELEKRLQAAEAKLGEETKPRLLREEVTAEEIAEVVSRW  540 (852)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHhhhcchHHHHHHHHHHHHHhhhccccccccCCcCHHHHHHHHHHh
Confidence                                                                             000000000000000


Q ss_pred             CCcccccccccCCCc----------------ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCC
Q 007255          273 GPSITRGVTVEIPKV----------------TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCS  336 (611)
Q Consensus       273 ~~~~~~~~~~~~~~~----------------~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~G  336 (611)
                               ..+|..                -...|+|++.+.+.+.+.+......-    .-..+|...+||+||+|||
T Consensus       541 ---------tgip~~~~~~~e~~~l~~l~~~l~~~v~GQ~~av~~v~~~i~~~~~gl----~~~~~p~~~~Lf~Gp~GvG  607 (852)
T TIGR03346       541 ---------TGIPVSKMLEGEREKLLHMEEVLHERVVGQDEAVEAVSDAIRRSRAGL----SDPNRPIGSFLFLGPTGVG  607 (852)
T ss_pred             ---------cCCCcccccHHHHHHHHHHHHHhhcccCCChHHHHHHHHHHHHHhccC----CCCCCCCeEEEEEcCCCCC
Confidence                     001111                12457888888888887776421000    0011344568999999999


Q ss_pred             hHHHHHHHHHHh---CCcEEeecchhhccc------------cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCC
Q 007255          337 KTTLAKAAAHAA---EASFFSLSGAELYSM------------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGG  401 (611)
Q Consensus       337 KT~la~ala~~~---~~~~~~~~~~~~~~~------------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~  401 (611)
                      ||++|+++|..+   +.+++.++++++...            |+|..+.  ..+....+..+.+|||||||+.+      
T Consensus       608 Kt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~~~~l~g~~~g~~g~~~~--g~l~~~v~~~p~~vlllDeieka------  679 (852)
T TIGR03346       608 KTELAKALAEFLFDDEDAMVRIDMSEYMEKHSVARLIGAPPGYVGYEEG--GQLTEAVRRKPYSVVLFDEVEKA------  679 (852)
T ss_pred             HHHHHHHHHHHhcCCCCcEEEEechhhcccchHHHhcCCCCCccCcccc--cHHHHHHHcCCCcEEEEeccccC------
Confidence            999999999987   468888888776432            2222111  12334445555679999999866      


Q ss_pred             CCCCCcchhHHHHHHHHHHhcCCC---------CCCCeEEEEecCCCcc-------------------------cchhcc
Q 007255          402 SSSTSITVGERLLSTLLTEMDGLE---------QAKGILVLAATNRPHA-------------------------IDAALM  447 (611)
Q Consensus       402 ~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~~~vI~~tn~~~~-------------------------ld~al~  447 (611)
                              +..+.+.|++.|+...         .-.+++||+|||....                         +.|.|+
T Consensus       680 --------~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn~g~~~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~  751 (852)
T TIGR03346       680 --------HPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNLGSQFIQELAGGDDYEEMREAVMEVLRAHFRPEFL  751 (852)
T ss_pred             --------CHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCCcchHhHhhhcccccHHHHHHHHHHHHHhhcCHHHh
Confidence                    3567888998886421         1245789999997321                         224555


Q ss_pred             CCCCccceeecCCCCHHHHHHHHHHHhcC-------CC--CC-CcccHHHHHHhCC--CCCHHHHHHHHHHHHHHHHHh
Q 007255          448 RPGRFDLVLYVPPPDLEARHEILRVHTRN-------MK--VG-DDVDLRSIAEETE--LFTGAELEGLCREAGIVALRE  514 (611)
Q Consensus       448 r~gRf~~~i~~~~p~~~~r~~il~~~~~~-------~~--~~-~~~~~~~la~~~~--g~s~~~i~~~~~~a~~~a~~~  514 (611)
                      .  |++.++.|.+++.+...+|+...+..       ..  +. ++..++.|++...  .+..+.++++++......+-+
T Consensus       752 ~--Rid~IivF~PL~~e~l~~I~~l~L~~l~~~l~~~~~~l~i~~~a~~~L~~~~~~~~~gaR~L~~~i~~~i~~~l~~  828 (852)
T TIGR03346       752 N--RIDEIVVFHPLGREQIARIVEIQLGRLRKRLAERKITLELSDAALDFLAEAGYDPVYGARPLKRAIQREIENPLAK  828 (852)
T ss_pred             c--CcCeEEecCCcCHHHHHHHHHHHHHHHHHHHHHCCCeecCCHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHHHHH
Confidence            4  99999999999999999999865432       11  11 2233566666532  456678888777666555443

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=1.9e-28  Score=265.27  Aligned_cols=406  Identities=20%  Similarity=0.281  Sum_probs=273.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~   85 (611)
                      -.++.++|.++.+.++.+.+..             +..+|-+|+|+||+|||.++..+|...          +..++.++
T Consensus       167 gklDPvIGRd~EI~r~iqIL~R-------------R~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD  233 (786)
T COG0542         167 GKLDPVIGRDEEIRRTIQILSR-------------RTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLD  233 (786)
T ss_pred             CCCCCCcChHHHHHHHHHHHhc-------------cCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEec
Confidence            4678999999999999998754             345677889999999999999999876          45677777


Q ss_pred             ccccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        86 ~~~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      ...+.  ..+.|+.+.+++.+.++.....    +.||||||+|.+.+.+...++ .....+.|--.+...        .+
T Consensus       234 ~g~LvAGakyRGeFEeRlk~vl~ev~~~~----~vILFIDEiHtiVGAG~~~G~-a~DAaNiLKPaLARG--------eL  300 (786)
T COG0542         234 LGSLVAGAKYRGEFEERLKAVLKEVEKSK----NVILFIDEIHTIVGAGATEGG-AMDAANLLKPALARG--------EL  300 (786)
T ss_pred             HHHHhccccccCcHHHHHHHHHHHHhcCC----CeEEEEechhhhcCCCccccc-ccchhhhhHHHHhcC--------Ce
Confidence            77665  5688999999999999987542    789999999999987754333 334555555555542        46


Q ss_pred             EEEEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-----ccHHHHHHhccCCcc---
Q 007255          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-----VDLEAIATSCNGYVG---  230 (611)
Q Consensus       164 ~ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-----~~~~~la~~~~g~~~---  230 (611)
                      .+|++|+..+     .-|++|.|  ||. .+.+..|+.++-..|++..-..+.....     .-+...+..++.|..   
T Consensus       301 ~~IGATT~~EYRk~iEKD~AL~R--RFQ-~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D~Al~aAv~LS~RYI~dR~  377 (786)
T COG0542         301 RCIGATTLDEYRKYIEKDAALER--RFQ-KVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRF  377 (786)
T ss_pred             EEEEeccHHHHHHHhhhchHHHh--cCc-eeeCCCCCHHHHHHHHHHHHHHHHHccCceecHHHHHHHHHHHHhhcccCC
Confidence            7888887643     45899999  996 8999999999999999876655443322     124444444444321   


Q ss_pred             --ccHHHHHHHHHHHHhhhccccc---------------------cc--cccc----------------------chhHH
Q 007255          231 --ADLEALCREATMSAVKRSSDAN---------------------EC--AGVL----------------------SVTME  263 (611)
Q Consensus       231 --~dl~~l~~~a~~~a~~r~~~~~---------------------~~--~~~~----------------------~v~~e  263 (611)
                        .-.-.++++|+....-......                     +.  ....                      .++++
T Consensus       378 LPDKAIDLiDeA~a~~~l~~~~p~~l~~~~~~~~~l~~e~~~~~~e~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~v~~~  457 (786)
T COG0542         378 LPDKAIDLLDEAGARVRLEIDKPEELDELERELAQLEIEKEALEREQDEKEKKLIDEIIKLKEGRIPELEKELEAEVDED  457 (786)
T ss_pred             CCchHHHHHHHHHHHHHhcccCCcchhHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhHHHHHhhccCHH
Confidence              1123344444432211100000                     00  0000                      02223


Q ss_pred             HHHHHHhccCCc-cccccc------ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCC----CCCCCcceeCC
Q 007255          264 DWRHARSVVGPS-ITRGVT------VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGI----SPVRGALLHGP  332 (611)
Q Consensus       264 d~~~a~~~i~~~-~~~~~~------~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~----~~~~~~Ll~Gp  332 (611)
                      ++........-. ..+...      ......--..|+||+++...+...+..        .+.|+    +|..++||.||
T Consensus       458 ~Ia~vv~~~TgIPv~~l~~~e~~kll~le~~L~~rViGQd~AV~avs~aIrr--------aRaGL~dp~rPigsFlF~GP  529 (786)
T COG0542         458 DIAEVVARWTGIPVAKLLEDEKEKLLNLERRLKKRVIGQDEAVEAVSDAIRR--------ARAGLGDPNRPIGSFLFLGP  529 (786)
T ss_pred             HHHHHHHHHHCCChhhhchhhHHHHHHHHHHHhcceeChHHHHHHHHHHHHH--------HhcCCCCCCCCceEEEeeCC
Confidence            333222211100 000000      001111124588999999988888764        23333    44567899999


Q ss_pred             CCCChHHHHHHHHHHhC---CcEEeecchhhccc------------cccchHHHHHHHHHHHHhcCCcEEEEcccccccc
Q 007255          333 PGCSKTTLAKAAAHAAE---ASFFSLSGAELYSM------------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (611)
Q Consensus       333 ~G~GKT~la~ala~~~~---~~~~~~~~~~~~~~------------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~  397 (611)
                      +|+|||.+|+++|..+.   ..++.++++++..+            |+|-.+..  .+-+..+..+.|||++|||++-  
T Consensus       530 TGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsVSrLIGaPPGYVGyeeGG--~LTEaVRr~PySViLlDEIEKA--  605 (786)
T COG0542         530 TGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEGG--QLTEAVRRKPYSVILLDEIEKA--  605 (786)
T ss_pred             CcccHHHHHHHHHHHhcCCCccceeechHHHHHHHHHHHHhCCCCCCceecccc--chhHhhhcCCCeEEEechhhhc--
Confidence            99999999999999995   88999999998764            67665532  3455566677789999999854  


Q ss_pred             cCCCCCCCCcchhHHHHHHHHHHhcCCCCC---------CCeEEEEecCCCc----------------------------
Q 007255          398 KRGGSSSTSITVGERLLSTLLTEMDGLEQA---------KGILVLAATNRPH----------------------------  440 (611)
Q Consensus       398 ~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~---------~~~~vI~~tn~~~----------------------------  440 (611)
                                  +.++++-||+.||...-.         .++++|+|||--.                            
T Consensus       606 ------------HpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~~  673 (786)
T COG0542         606 ------------HPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKK  673 (786)
T ss_pred             ------------CHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecccchHHHHhhccccccchhhhHHHHHHHHHHh
Confidence                        578999999999864221         2588999998421                            


Q ss_pred             ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcC
Q 007255          441 AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRN  476 (611)
Q Consensus       441 ~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~  476 (611)
                      ...|.|+.  |+|.+|.|.+.+.+...+|+...+..
T Consensus       674 ~F~PEFLN--Rid~II~F~~L~~~~l~~Iv~~~L~~  707 (786)
T COG0542         674 HFRPEFLN--RIDEIIPFNPLSKEVLERIVDLQLNR  707 (786)
T ss_pred             hCCHHHHh--hcccEEeccCCCHHHHHHHHHHHHHH
Confidence            13445555  99999999999999999999866543

>CHL00176 ftsH cell division protein; Validated

Probab=99.96  E-value=4.4e-29  Score=272.36  Aligned_cols=240  Identities=37%  Similarity=0.567  Sum_probs=205.9

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      ..|++++|++++++.+.+.+.. +..++.+..+|...|+++||+||||||||++++++|.+++.+++.++++++...+.+
T Consensus       180 ~~f~dv~G~~~~k~~l~eiv~~-lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~~g  258 (638)
T CHL00176        180 ITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVG  258 (638)
T ss_pred             CCHHhccChHHHHHHHHHHHHH-HhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHhhh
Confidence            4679999999999999998765 777888899999999999999999999999999999999999999999998888888


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~----~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~  171 (611)
                      .....++.+|..+...    .||||||||+|.+...++.    .+......+.+|+..++....    ..++++|++||.
T Consensus       259 ~~~~~vr~lF~~A~~~----~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~----~~~ViVIaaTN~  330 (638)
T CHL00176        259 VGAARVRDLFKKAKEN----SPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKG----NKGVIVIAATNR  330 (638)
T ss_pred             hhHHHHHHHHHHHhcC----CCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccC----CCCeeEEEecCc
Confidence            7778889999888654    5999999999999865432    223334566777777776543    236899999999


Q ss_pred             cccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccc
Q 007255          172 VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA  251 (611)
Q Consensus       172 ~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~  251 (611)
                      ++.+|+++.|++||+..+.++.|+.++|.+|++.+++......+.++..++..+.||+++||.+++++|...+.++..  
T Consensus       331 ~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~~d~~l~~lA~~t~G~sgaDL~~lvneAal~a~r~~~--  408 (638)
T CHL00176        331 VDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARRKK--  408 (638)
T ss_pred             hHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccchhHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCC--
Confidence            999999999999999999999999999999999999887777788899999999999999999999999887765432  


Q ss_pred             cccccccchhHHHHHHHHhcc
Q 007255          252 NECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       252 ~~~~~~~~v~~ed~~~a~~~i  272 (611)
                            ..++.+|+..+...+
T Consensus       409 ------~~It~~dl~~Ai~rv  423 (638)
T CHL00176        409 ------ATITMKEIDTAIDRV  423 (638)
T ss_pred             ------CCcCHHHHHHHHHHH
Confidence                  257888998887654

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.96  E-value=3e-27  Score=268.59  Aligned_cols=445  Identities=19%  Similarity=0.261  Sum_probs=265.1

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~   85 (611)
                      ..+++++|++..+..+.+++..             +..++++|+||||||||++++.+|..+          +.+++.++
T Consensus       175 ~~l~~vigr~~ei~~~i~iL~r-------------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~  241 (857)
T PRK10865        175 GKLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALD  241 (857)
T ss_pred             CCCCcCCCCHHHHHHHHHHHhc-------------CCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEe
Confidence            4678999999988888887643             244789999999999999999999988          67788887


Q ss_pred             ccccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        86 ~~~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      .+.+.  ..+.|+.+..++.+|+.....   ..++||||||+|.+.+.+...+.  ....+.|...+..        +.+
T Consensus       242 l~~l~ag~~~~g~~e~~lk~~~~~~~~~---~~~~ILfIDEih~l~~~~~~~~~--~d~~~~lkp~l~~--------g~l  308 (857)
T PRK10865        242 MGALVAGAKYRGEFEERLKGVLNDLAKQ---EGNVILFIDELHTMVGAGKADGA--MDAGNMLKPALAR--------GEL  308 (857)
T ss_pred             hhhhhhccchhhhhHHHHHHHHHHHHHc---CCCeEEEEecHHHhccCCCCccc--hhHHHHhcchhhc--------CCC
Confidence            77755  456788889999999876532   35789999999999876543222  2334444444432        358


Q ss_pred             EEEEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-----cccHHHHHHhccCCccc--
Q 007255          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-----NVDLEAIATSCNGYVGA--  231 (611)
Q Consensus       164 ~ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-----~~~~~~la~~~~g~~~~--  231 (611)
                      .+|++|+..+     .+|+++.|  ||. .|.++.|+.+++..|++.+...+....     +..+...+..+++|...  
T Consensus       309 ~~IgaTt~~e~r~~~~~d~al~r--Rf~-~i~v~eP~~~~~~~iL~~l~~~~e~~~~v~~~d~a~~~a~~ls~ry~~~~~  385 (857)
T PRK10865        309 HCVGATTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQ  385 (857)
T ss_pred             eEEEcCCCHHHHHHhhhcHHHHh--hCC-EEEeCCCCHHHHHHHHHHHhhhhccCCCCCcCHHHHHHHHHHhhccccCCC
Confidence            8999999866     58999999  996 689999999999999987765543222     22233333444433211  


Q ss_pred             ---cHHHHHHHHHHHH---------------------------hhhccccc---------c----cccc-----------
Q 007255          232 ---DLEALCREATMSA---------------------------VKRSSDAN---------E----CAGV-----------  257 (611)
Q Consensus       232 ---dl~~l~~~a~~~a---------------------------~~r~~~~~---------~----~~~~-----------  257 (611)
                         ....+++.++...                           ..+..+..         .    ....           
T Consensus       386 ~pdkAi~LiD~aaa~~rl~~~~kp~~L~rLer~l~~L~~E~e~l~~e~~~~~~~~~~~l~~~l~~lq~e~~~L~eq~k~~  465 (857)
T PRK10865        386 LPDKAIDLIDEAASSIRMQIDSKPEELDRLDRRIIQLKLEQQALMKESDEASKKRLDMLNEELSDKERQYSELEEEWKAE  465 (857)
T ss_pred             CChHHHHHHHHHhcccccccccChHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               1111111111000                           00000000         0    0000           


Q ss_pred             ---------------------------------------------------------------cchhHHHHHHHHhccCC
Q 007255          258 ---------------------------------------------------------------LSVTMEDWRHARSVVGP  274 (611)
Q Consensus       258 ---------------------------------------------------------------~~v~~ed~~~a~~~i~~  274 (611)
                                                                                     ..++.+|+.......+.
T Consensus       466 k~el~~~~~~~~ele~l~~kie~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~i~~vv~~~tg  545 (857)
T PRK10865        466 KASLSGTQTIKAELEQAKIAIEQARRVGDLARMSELQYGKIPELEKQLAAATQLEGKTMRLLRNKVTDAEIAEVLARWTG  545 (857)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHhhhhhhHHHHHHHHHHHhhhccccccccCccCHHHHHHHHHHHHC
Confidence                                                                           00000000000000000


Q ss_pred             cc-ccccc------ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHH
Q 007255          275 SI-TRGVT------VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       275 ~~-~~~~~------~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      .. .+...      ......-...++|++.+.+.+...+.......   . ..-+|...+||+||+|||||++|+++|..
T Consensus       546 ip~~~~~~~~~~~l~~l~~~l~~~viGQ~~ai~~l~~~i~~~~~gl---~-~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~  621 (857)
T PRK10865        546 IPVSRMLESEREKLLRMEQELHHRVIGQNEAVEAVSNAIRRSRAGL---S-DPNRPIGSFLFLGPTGVGKTELCKALANF  621 (857)
T ss_pred             CCchhhhhhHHHHHHHHHHHhCCeEeCCHHHHHHHHHHHHHHHhcc---c-CCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            00 00000      00001113457888888888887776311000   0 01123346899999999999999999998


Q ss_pred             h---CCcEEeecchhhccc------------cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHH
Q 007255          348 A---EASFFSLSGAELYSM------------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGER  412 (611)
Q Consensus       348 ~---~~~~~~~~~~~~~~~------------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~  412 (611)
                      +   +.+++.++++++...            |+|..+.  ..+....+..+.+||+|||++.+              +..
T Consensus       622 l~~~~~~~i~id~se~~~~~~~~~LiG~~pgy~g~~~~--g~l~~~v~~~p~~vLllDEieka--------------~~~  685 (857)
T PRK10865        622 MFDSDDAMVRIDMSEFMEKHSVSRLVGAPPGYVGYEEG--GYLTEAVRRRPYSVILLDEVEKA--------------HPD  685 (857)
T ss_pred             hhcCCCcEEEEEhHHhhhhhhHHHHhCCCCcccccchh--HHHHHHHHhCCCCeEEEeehhhC--------------CHH
Confidence            7   457888888876432            2222111  11223334444589999999866              356


Q ss_pred             HHHHHHHHhcCCC---------CCCCeEEEEecCCCc-------------------------ccchhccCCCCccceeec
Q 007255          413 LLSTLLTEMDGLE---------QAKGILVLAATNRPH-------------------------AIDAALMRPGRFDLVLYV  458 (611)
Q Consensus       413 ~~~~ll~~l~~~~---------~~~~~~vI~~tn~~~-------------------------~ld~al~r~gRf~~~i~~  458 (611)
                      +.+.|++.|+...         ...+.+||+|||...                         .+.|+|+.  |++.++.|
T Consensus       686 v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PELln--Rld~iivF  763 (857)
T PRK10865        686 VFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNLGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFIN--RIDEVVVF  763 (857)
T ss_pred             HHHHHHHHHhhCceecCCceEEeecccEEEEeCCcchHHHHHhccccchHHHHHHHHHHHcccccHHHHH--hCCeeEec
Confidence            7788888886321         123467888999731                         13456776  99999999


Q ss_pred             CCCCHHHHHHHHHHHhcCC-------CCC---CcccHHHHHHhC--CCCCHHHHHHHHHHHHHHH
Q 007255          459 PPPDLEARHEILRVHTRNM-------KVG---DDVDLRSIAEET--ELFTGAELEGLCREAGIVA  511 (611)
Q Consensus       459 ~~p~~~~r~~il~~~~~~~-------~~~---~~~~~~~la~~~--~g~s~~~i~~~~~~a~~~a  511 (611)
                      .+++.+....|++..+...       .+.   ++..++.|+...  ..|-.+.++.+++.-....
T Consensus       764 ~PL~~edl~~Iv~~~L~~l~~rl~~~gi~l~is~~al~~L~~~gy~~~~GARpL~r~I~~~i~~~  828 (857)
T PRK10865        764 HPLGEQHIASIAQIQLQRLYKRLEERGYEIHISDEALKLLSENGYDPVYGARPLKRAIQQQIENP  828 (857)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHhCCCcCcCCHHHHHHHHHcCCCccCChHHHHHHHHHHHHHH
Confidence            9999999999988665432       121   122244455432  1223556666666544443

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.95  E-value=5.9e-28  Score=245.20  Aligned_cols=256  Identities=35%  Similarity=0.566  Sum_probs=211.7

Q ss_pred             cccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc
Q 007255           11 HNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH   90 (611)
Q Consensus        11 ~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~   90 (611)
                      .++.|   +++.|++.+++.+.+.+.+|...+..+..+. .+.+++||.||||+|||++++++|.+.+..|+.++++.+.
T Consensus       148 ~~v~~---~di~gl~~~k~~l~e~vi~p~lr~d~F~glr-~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLt  223 (428)
T KOG0740|consen  148 RNVGW---DDIAGLEDAKQSLKEAVILPLLRPDLFLGLR-EPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLT  223 (428)
T ss_pred             Ccccc---cCCcchhhHHHHhhhhhhhcccchHhhhccc-cccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhh
Confidence            44667   8999999999999999999999888876422 3558999999999999999999999999999999999999


Q ss_pred             cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee
Q 007255           91 KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt  169 (611)
                      +.|.|+.+..++.+|.-+...    +|+|+||||+|.++..+. ...+...++..+++-.++.....  ..++|++|++|
T Consensus       224 sK~~Ge~eK~vralf~vAr~~----qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~--~~drvlvigaT  297 (428)
T KOG0740|consen  224 SKYVGESEKLVRALFKVARSL----QPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSA--PDDRVLVIGAT  297 (428)
T ss_pred             hhccChHHHHHHHHHHHHHhc----CCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCC--CCCeEEEEecC
Confidence            999999999999999988755    699999999999998773 33455556777777666654332  33489999999


Q ss_pred             cCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCC-CCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhc
Q 007255          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP-LDANVDLEAIATSCNGYVGADLEALCREATMSAVKRS  248 (611)
Q Consensus       170 n~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~-~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~  248 (611)
                      |.|+.+|.+++|  ||...+++|.|+.+.|..+|++++...+ ...+.++..+++.++||++.|+.++|.+|+..-.+..
T Consensus       298 N~P~e~Dea~~R--rf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Tegysgsdi~~l~kea~~~p~r~~  375 (428)
T KOG0740|consen  298 NRPWELDEAARR--RFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEGYSGSDITALCKEAAMGPLREL  375 (428)
T ss_pred             CCchHHHHHHHH--HhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCcccccHHHHHHHhhcCchhhc
Confidence            999999999999  9999999999999999999999998773 2344679999999999999999999999987665544


Q ss_pred             ccc-----cccccccchhHHHHHHHHhccCCcccc
Q 007255          249 SDA-----NECAGVLSVTMEDWRHARSVVGPSITR  278 (611)
Q Consensus       249 ~~~-----~~~~~~~~v~~ed~~~a~~~i~~~~~~  278 (611)
                      ...     ........++..|+..+...+.+....
T Consensus       376 ~~~~~~~~~~~~~~r~i~~~df~~a~~~i~~~~s~  410 (428)
T KOG0740|consen  376 GGTTDLEFIDADKIRPITYPDFKNAFKNIKPSVSL  410 (428)
T ss_pred             ccchhhhhcchhccCCCCcchHHHHHHhhccccCc
Confidence            431     123344566777788887777665543

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=99.95  E-value=7.6e-27  Score=230.85  Aligned_cols=207  Identities=21%  Similarity=0.321  Sum_probs=162.7

Q ss_pred             cccccc-CCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccc
Q 007255           16 KAEEAI-GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (611)
Q Consensus        16 ~~~~~i-~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~   94 (611)
                      ..|+++ +|+--.+..+.+.......  .....+|+++|.+++|+||||||||++++++|++++.+++.+++.++.+.+.
T Consensus       112 ~~f~~~~g~~~~~p~f~dk~~~hi~k--n~l~~~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~v  189 (413)
T PLN00020        112 RSFDNLVGGYYIAPAFMDKVAVHIAK--NFLALPNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENA  189 (413)
T ss_pred             cchhhhcCccccCHHHHHHHHHHHHh--hhhhccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcC
Confidence            556677 6666666666555543221  1223367899999999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHHHHHHhhh-hcCCCeEEEEccccccCCCCCCC-chhhHHHH-HHHHHHHhcCCC--------CCCCCCcE
Q 007255           95 GESEKALREAFSQASSHA-LSGKPSVVFIDEIDALCPRRDHR-REQDVRIA-SQLFTLMDSNKP--------SKTSVPHV  163 (611)
Q Consensus        95 ~~~~~~l~~~f~~~~~~~-~~~~~~il~IDeid~l~~~~~~~-~~~~~~~~-~~ll~~l~~~~~--------~~~~~~~v  163 (611)
                      |++++.++++|..|.... ..++||||||||||.+++.++.. .....+++ .+|++++|....        ......+|
T Consensus       190 GEsEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V  269 (413)
T PLN00020        190 GEPGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRV  269 (413)
T ss_pred             CcHHHHHHHHHHHHHHHhhccCCCeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCc
Confidence            999999999999997654 35679999999999999987532 22233444 789999886311        11234469


Q ss_pred             EEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccC
Q 007255          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNG  227 (611)
Q Consensus       164 ~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g  227 (611)
                      +||+|||+++.|||+|+|+|||+..  +..|+.++|.+|++.+++...++ ..++..++..+.|
T Consensus       270 ~VIaTTNrpd~LDpALlRpGRfDk~--i~lPd~e~R~eIL~~~~r~~~l~-~~dv~~Lv~~f~g  330 (413)
T PLN00020        270 PIIVTGNDFSTLYAPLIRDGRMEKF--YWAPTREDRIGVVHGIFRDDGVS-REDVVKLVDTFPG  330 (413)
T ss_pred             eEEEeCCCcccCCHhHcCCCCCCce--eCCCCHHHHHHHHHHHhccCCCC-HHHHHHHHHcCCC
Confidence            9999999999999999999999975  46899999999999999887665 3567777776655

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.95  E-value=5.3e-27  Score=259.45  Aligned_cols=246  Identities=35%  Similarity=0.544  Sum_probs=210.8

Q ss_pred             ccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc
Q 007255           12 NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (611)
Q Consensus        12 ~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~   91 (611)
                      ......++++.|.+..++.+.+.+.. +..+..+..++...|++++|+||||||||+++++++++++.+++.++++++..
T Consensus       145 ~~~~~~~~di~g~~~~~~~l~~i~~~-~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~  223 (644)
T PRK10733        145 DQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVE  223 (644)
T ss_pred             hhhhCcHHHHcCHHHHHHHHHHHHHH-hhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHH
Confidence            34456789999999999999998876 45566677788888999999999999999999999999999999999999888


Q ss_pred             ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEE
Q 007255           92 AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (611)
Q Consensus        92 ~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~----~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~  167 (611)
                      .+.+.....++.+|..+...    .||||||||+|.++..+..    +.......+++++..+|....    ...+++|+
T Consensus       224 ~~~g~~~~~~~~~f~~a~~~----~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~----~~~vivIa  295 (644)
T PRK10733        224 MFVGVGASRVRDMFEQAKKA----APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG----NEGIIVIA  295 (644)
T ss_pred             hhhcccHHHHHHHHHHHHhc----CCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccC----CCCeeEEE
Confidence            88888888899999887644    5999999999999876542    223344677888888887543    23689999


Q ss_pred             eecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhh
Q 007255          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKR  247 (611)
Q Consensus       168 ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r  247 (611)
                      +||+++.+|++++|++||++.+.++.|+.++|.+|++.++...++..+.++..++..+.||+|+||.++|++|...+.++
T Consensus       296 aTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~~d~~~la~~t~G~sgadl~~l~~eAa~~a~r~  375 (644)
T PRK10733        296 ATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARG  375 (644)
T ss_pred             ecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCCcCCHHHHHhhCCCCCHHHHHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999998888889999999999999999999999999988764


Q ss_pred             cccccccccccchhHHHHHHHHhccCC
Q 007255          248 SSDANECAGVLSVTMEDWRHARSVVGP  274 (611)
Q Consensus       248 ~~~~~~~~~~~~v~~ed~~~a~~~i~~  274 (611)
                      ..        ..++..|+..+...+.+
T Consensus       376 ~~--------~~i~~~d~~~a~~~v~~  394 (644)
T PRK10733        376 NK--------RVVSMVEFEKAKDKIMM  394 (644)
T ss_pred             CC--------CcccHHHHHHHHHHHhc
Confidence            32        35788888888776644

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.95  E-value=2.9e-27  Score=270.25  Aligned_cols=214  Identities=17%  Similarity=0.225  Sum_probs=172.3

Q ss_pred             HHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccc----------cc------------------
Q 007255           44 QAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH----------VG------------------   95 (611)
Q Consensus        44 ~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~----------~~------------------   95 (611)
                      ...++|..+|++|||+||||||||++|+++|.+.+++++.++++++...+          .|                  
T Consensus      1621 ~slrLGl~pPKGILLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~~e 1700 (2281)
T CHL00206       1621 FSLRLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTE 1700 (2281)
T ss_pred             HHHHcCCCCCCceEEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhhcccccccccccccccccccccccccccccchh
Confidence            44678999999999999999999999999999999999999999887543          11                  


Q ss_pred             -------------chH--HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCC
Q 007255           96 -------------ESE--KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSV  160 (611)
Q Consensus        96 -------------~~~--~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  160 (611)
                                   ...  ..++.+|+.|+...    ||||||||||.++....     ....+.+|++.|++..... ..
T Consensus      1701 ~~e~~n~~~~~m~~~e~~~rIr~lFelARk~S----PCIIFIDEIDaL~~~ds-----~~ltL~qLLneLDg~~~~~-s~ 1770 (2281)
T CHL00206       1701 LLTMMNALTMDMMPKIDRFYITLQFELAKAMS----PCIIWIPNIHDLNVNES-----NYLSLGLLVNSLSRDCERC-ST 1770 (2281)
T ss_pred             hhhhcchhhhhhhhhhhHHHHHHHHHHHHHCC----CeEEEEEchhhcCCCcc-----ceehHHHHHHHhccccccC-CC
Confidence                         111  23778899888664    99999999999987521     1123678888888653211 22


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhh--cCCCCCCc-ccHHHHHHhccCCccccHHHHH
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYT--KKVPLDAN-VDLEAIATSCNGYVGADLEALC  237 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~--~~~~~~~~-~~~~~la~~~~g~~~~dl~~l~  237 (611)
                      .+|+|||+||.|+.+|||++|||||+..|+++.|+..+|.+++..+.  ++..+..+ .++..+|..|.||+|+||.++|
T Consensus      1771 ~~VIVIAATNRPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADLanLv 1850 (2281)
T CHL00206       1771 RNILVIASTHIPQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSITMGSNARDLVALT 1850 (2281)
T ss_pred             CCEEEEEeCCCcccCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhhcCCCCCcccccHHHHHHhCCCCCHHHHHHHH
Confidence            36999999999999999999999999999999999999999988653  34444433 5799999999999999999999


Q ss_pred             HHHHHHHhhhcccccccccccchhHHHHHHHHhccCCc
Q 007255          238 REATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPS  275 (611)
Q Consensus       238 ~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~  275 (611)
                      ++|+..++++...        .++..++..|...+...
T Consensus      1851 NEAaliAirq~ks--------~Id~~~I~~Al~Rq~~g 1880 (2281)
T CHL00206       1851 NEALSISITQKKS--------IIDTNTIRSALHRQTWD 1880 (2281)
T ss_pred             HHHHHHHHHcCCC--------ccCHHHHHHHHHHHHhh
Confidence            9999999886543        47888888888766443

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.91  E-value=1.6e-23  Score=210.94  Aligned_cols=211  Identities=26%  Similarity=0.328  Sum_probs=164.1

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      .+.| .+|+.++-..+.|+.+.+-+...++...-+++.|.++.+|+|||||||||||+++.|+|++++..++.++.++..
T Consensus       194 f~Hp-stF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~  272 (457)
T KOG0743|consen  194 FPHP-STFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVK  272 (457)
T ss_pred             CCCC-CCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCceEEeeecccc
Confidence            3344 789999999999999999998889999999999999999999999999999999999999999999999887653


Q ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCC---CCc-chhHHHHHHHHHHhcCCCCCC--CeEEEEe
Q 007255          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSS---TSI-TVGERLLSTLLTEMDGLEQAK--GILVLAA  435 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~---~~~-~~~~~~~~~ll~~l~~~~~~~--~~~vI~~  435 (611)
                      .    .++  ++.++...  ...+||+|+|||+-+..++....   ... ....-.++.||+.+||+....  ..|+|+|
T Consensus       273 ~----n~d--Lr~LL~~t--~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFT  344 (457)
T KOG0743|consen  273 L----DSD--LRHLLLAT--PNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFT  344 (457)
T ss_pred             C----cHH--HHHHHHhC--CCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEe
Confidence            3    222  66666554  34569999999986643322221   111 123356889999999997665  6788889


Q ss_pred             cCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCC--CCHHHHHHH
Q 007255          436 TNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETEL--FTGAELEGL  503 (611)
Q Consensus       436 tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g--~s~~~i~~~  503 (611)
                      ||.++.|||||+||||+|.+|+++..+.++-+.+++.++..-.  +..-+.++.+..++  .|+|++...
T Consensus       345 TNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~~--~h~L~~eie~l~~~~~~tPA~V~e~  412 (457)
T KOG0743|consen  345 TNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIEE--DHRLFDEIERLIEETEVTPAQVAEE  412 (457)
T ss_pred             cCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcCCCC--CcchhHHHHHHhhcCccCHHHHHHH
Confidence            9999999999999999999999999999999999998886432  12223333333332  588887543

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.88  E-value=7.8e-22  Score=193.70  Aligned_cols=232  Identities=22%  Similarity=0.327  Sum_probs=171.5

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~  364 (611)
                      ++-.+++++-...+.+.+..+....-+.     +....|-+++|||||||||||++|+-+|...|..+-.+.++++.. .
T Consensus       350 gk~pl~~ViL~psLe~Rie~lA~aTaNT-----K~h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAP-l  423 (630)
T KOG0742|consen  350 GKDPLEGVILHPSLEKRIEDLAIATANT-----KKHQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAP-L  423 (630)
T ss_pred             CCCCcCCeecCHHHHHHHHHHHHHhccc-----ccccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCccc-c
Confidence            3445777877777777777765432111     112345578999999999999999999999999998888888753 2


Q ss_pred             ccchHHHHHHHHHHHHhcCC-cEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccc
Q 007255          365 VGESEALLRNTFQRARLAAP-SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAID  443 (611)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~p-~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld  443 (611)
                      -.+..-.|+++|+.++.... -+|||||+|.+..+|...--  +...+..+|+||-.--  ..+..++++.+||+|.++|
T Consensus       424 G~qaVTkiH~lFDWakkS~rGLllFIDEADAFLceRnktym--SEaqRsaLNAlLfRTG--dqSrdivLvlAtNrpgdlD  499 (630)
T KOG0742|consen  424 GAQAVTKIHKLFDWAKKSRRGLLLFIDEADAFLCERNKTYM--SEAQRSALNALLFRTG--DQSRDIVLVLATNRPGDLD  499 (630)
T ss_pred             chHHHHHHHHHHHHHhhcccceEEEehhhHHHHHHhchhhh--cHHHHHHHHHHHHHhc--ccccceEEEeccCCccchh
Confidence            23456689999999987654 48999999999988743221  2334556777765443  4667889999999999999


Q ss_pred             hhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-----------------------Cc----ccHHHHHHhCCCCC
Q 007255          444 AALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-----------------------DD----VDLRSIAEETELFT  496 (611)
Q Consensus       444 ~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-----------------------~~----~~~~~la~~~~g~s  496 (611)
                      .|+-.  |+|..|+||+|..++|..++..++.++-..                       ..    .-+.+.|+.|+|||
T Consensus       500 sAV~D--Ride~veFpLPGeEERfkll~lYlnkyi~~~~~~~~~~~~~~lfkk~sQ~i~l~~~~t~~~~~EaAkkTeGfS  577 (630)
T KOG0742|consen  500 SAVND--RIDEVVEFPLPGEEERFKLLNLYLNKYILKPATSGKPGKWSHLFKKESQRIKLAGFDTGRKCSEAAKKTEGFS  577 (630)
T ss_pred             HHHHh--hhhheeecCCCChHHHHHHHHHHHHHHhcCcCCCCCCchhhHHHhhhhheeeeccchHHHHHHHHHHhccCCc
Confidence            99999  999999999999999999999887554211                       01    12577899999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          497 GAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       497 ~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      |++|..++-.....++-..  +..++..-|....
T Consensus       578 GREiakLva~vQAavYgse--dcvLd~~lf~e~v  609 (630)
T KOG0742|consen  578 GREIAKLVASVQAAVYGSE--DCVLDEALFDERV  609 (630)
T ss_pred             HHHHHHHHHHHHHHHhccc--chhhHHHHHHHHH
Confidence            9999999887665555332  4455555555544

>CHL00181 cbbX CbbX; Provisional

Probab=99.88  E-value=1.3e-21  Score=195.48  Aligned_cols=215  Identities=17%  Similarity=0.269  Sum_probs=162.4

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCCCCC---CCcceeCCCCCChHHHHHHHHHHh-------CCcEEeecchh
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPV---RGALLHGPPGCSKTTLAKAAAHAA-------EASFFSLSGAE  359 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~---~~~Ll~Gp~G~GKT~la~ala~~~-------~~~~~~~~~~~  359 (611)
                      ++++|++.+|+++.+++.+ +.....+.+.|..++   .+++|+||||||||++|+++|..+       ..+++.++.++
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~-~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~  101 (287)
T CHL00181         23 EELVGLAPVKTRIREIAAL-LLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDD  101 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHH-HHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHH
Confidence            4799999999999999877 444566666776543   358999999999999999999886       23689999999


Q ss_pred             hccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCC
Q 007255          360 LYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP  439 (611)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~  439 (611)
                      +.+.|.|+++.....+++.+.   ++||||||+|.+...++     ..+.....+..|+..|+.  ..++++||++++..
T Consensus       102 l~~~~~g~~~~~~~~~l~~a~---ggVLfIDE~~~l~~~~~-----~~~~~~e~~~~L~~~me~--~~~~~~vI~ag~~~  171 (287)
T CHL00181        102 LVGQYIGHTAPKTKEVLKKAM---GGVLFIDEAYYLYKPDN-----ERDYGSEAIEILLQVMEN--QRDDLVVIFAGYKD  171 (287)
T ss_pred             HHHHHhccchHHHHHHHHHcc---CCEEEEEccchhccCCC-----ccchHHHHHHHHHHHHhc--CCCCEEEEEeCCcH
Confidence            999999988877777777653   46999999999864321     123457788999999984  45678888887643


Q ss_pred             c-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCC-cccHHHHHH----h--CCCCC-HHHHHHHHHH
Q 007255          440 H-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGD-DVDLRSIAE----E--TELFT-GAELEGLCRE  506 (611)
Q Consensus       440 ~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~-~~~~~~la~----~--~~g~s-~~~i~~~~~~  506 (611)
                      .     ..+|++.+  ||+.+|.|+.|+.+++.+|++.++++....- +.....+..    .  .+.|. ++++++++..
T Consensus       172 ~~~~~~~~np~L~s--R~~~~i~F~~~t~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~~GNaR~vrn~ve~  249 (287)
T CHL00181        172 RMDKFYESNPGLSS--RIANHVDFPDYTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANARSVRNALDR  249 (287)
T ss_pred             HHHHHHhcCHHHHH--hCCceEEcCCcCHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            2     24689998  9999999999999999999998886654332 222222222    2  23454 8999999998


Q ss_pred             HHHHHHHhhcc
Q 007255          507 AGIVALREDIS  517 (611)
Q Consensus       507 a~~~a~~~~~~  517 (611)
                      +......|.+.
T Consensus       250 ~~~~~~~r~~~  260 (287)
T CHL00181        250 ARMRQANRIFE  260 (287)
T ss_pred             HHHHHHHHHHc
Confidence            87776666543

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.87  E-value=2.6e-21  Score=192.43  Aligned_cols=224  Identities=17%  Similarity=0.274  Sum_probs=161.7

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCC---CCCcceeCCCCCChHHHHHHHHHHh-------CCcEEeecc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISP---VRGALLHGPPGCSKTTLAKAAAHAA-------EASFFSLSG  357 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~---~~~~Ll~Gp~G~GKT~la~ala~~~-------~~~~~~~~~  357 (611)
                      .+++++|++.+|+++.+.+.++... ....+.|..+   ..+++|+||||||||++|+++|+.+       ..+++.+++
T Consensus         4 ~l~~~~Gl~~vk~~i~~~~~~~~~~-~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~   82 (261)
T TIGR02881         4 ELSRMVGLDEVKALIKEIYAWIQIN-EKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVER   82 (261)
T ss_pred             HHHHhcChHHHHHHHHHHHHHHHHH-HHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecH
Confidence            3678999999999999998875443 3333445543   3468999999999999999999875       347889999


Q ss_pred             hhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecC
Q 007255          358 AELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATN  437 (611)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn  437 (611)
                      +++.++|.|+....++.+|+.+.   ++||||||+|.|...      .........+..|+..|+.  ....+++|++++
T Consensus        83 ~~l~~~~~g~~~~~~~~~~~~a~---~~VL~IDE~~~L~~~------~~~~~~~~~i~~Ll~~~e~--~~~~~~vila~~  151 (261)
T TIGR02881        83 ADLVGEYIGHTAQKTREVIKKAL---GGVLFIDEAYSLARG------GEKDFGKEAIDTLVKGMED--NRNEFVLILAGY  151 (261)
T ss_pred             HHhhhhhccchHHHHHHHHHhcc---CCEEEEechhhhccC------CccchHHHHHHHHHHHHhc--cCCCEEEEecCC
Confidence            99999999999988888887764   469999999998531      1112345678889999974  355667776655


Q ss_pred             CCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHh-------CC--CCCHHHHHH
Q 007255          438 RPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEE-------TE--LFTGAELEG  502 (611)
Q Consensus       438 ~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~-------~~--g~s~~~i~~  502 (611)
                      ..+     .++|++.+  ||+..|.||.++.+++.+|++.++...... ++..+..+++.       ..  .-+++.+++
T Consensus       152 ~~~~~~~~~~~p~L~s--Rf~~~i~f~~~~~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~~~~gn~R~~~n  229 (261)
T TIGR02881       152 SDEMDYFLSLNPGLRS--RFPISIDFPDYTVEELMEIAERMVKEREYKLTEEAKWKLREHLYKVDQLSSREFSNARYVRN  229 (261)
T ss_pred             cchhHHHHhcChHHHh--ccceEEEECCCCHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHhccCCCCchHHHHHH
Confidence            332     36789998  999999999999999999999887765443 22224444321       11  125678888


Q ss_pred             HHHHHHHHHHHhhcccccccHHH
Q 007255          503 LCREAGIVALREDISATAVRNRH  525 (611)
Q Consensus       503 ~~~~a~~~a~~~~~~~~~i~~~~  525 (611)
                      ++..|......+.+.....+.++
T Consensus       230 ~~e~a~~~~~~r~~~~~~~~~~~  252 (261)
T TIGR02881       230 IIEKAIRRQAVRLLDKSDYSKED  252 (261)
T ss_pred             HHHHHHHHHHHHHhccCCCCHHH
Confidence            88877766665554444444433

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.87  E-value=4.4e-21  Score=190.81  Aligned_cols=217  Identities=19%  Similarity=0.244  Sum_probs=158.4

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCC---CceEEEEcCCCCcHHHHHHHHHHHh-------CCcEEEE
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKW---PRGLLLYGPPGTGKTSLVRAVVREC-------GAHLTVI   84 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~---~~~iLl~Gp~GtGKT~la~~la~~l-------~~~~~~v   84 (611)
                      |..+++++|++++|+.|.+++..+... ....+.|...   ..+++|+||||||||++|+++|+.+       ..+++.+
T Consensus         2 ~~~l~~~~Gl~~vk~~i~~~~~~~~~~-~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~   80 (261)
T TIGR02881         2 ERELSRMVGLDEVKALIKEIYAWIQIN-EKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEV   80 (261)
T ss_pred             hHHHHHhcChHHHHHHHHHHHHHHHHH-HHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEe
Confidence            567899999999999999988775443 3334456653   3689999999999999999999875       2367888


Q ss_pred             cccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        85 ~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      +++++...+.|++...+.++|+.+.       ++||||||+|.|....  ......+.+..++..++...      .+++
T Consensus        81 ~~~~l~~~~~g~~~~~~~~~~~~a~-------~~VL~IDE~~~L~~~~--~~~~~~~~i~~Ll~~~e~~~------~~~~  145 (261)
T TIGR02881        81 ERADLVGEYIGHTAQKTREVIKKAL-------GGVLFIDEAYSLARGG--EKDFGKEAIDTLVKGMEDNR------NEFV  145 (261)
T ss_pred             cHHHhhhhhccchHHHHHHHHHhcc-------CCEEEEechhhhccCC--ccchHHHHHHHHHHHHhccC------CCEE
Confidence            8889988888988888888887763       5799999999997422  12233456778888887642      2355


Q ss_pred             EEEeecCc-----ccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCccc-HHHHHHh---------ccCCc
Q 007255          165 VVASTNRV-----DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATS---------CNGYV  229 (611)
Q Consensus       165 ii~ttn~~-----~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~-~~~la~~---------~~g~~  229 (611)
                      +|+++.+.     ..++|++++  ||...+.||+|+.+++.+|++.++.......+.+ +..++..         ...-+
T Consensus       146 vila~~~~~~~~~~~~~p~L~s--Rf~~~i~f~~~~~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~~~~gn  223 (261)
T TIGR02881       146 LILAGYSDEMDYFLSLNPGLRS--RFPISIDFPDYTVEELMEIAERMVKEREYKLTEEAKWKLREHLYKVDQLSSREFSN  223 (261)
T ss_pred             EEecCCcchhHHHHhcChHHHh--ccceEEEECCCCHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHhccCCCCch
Confidence            66554432     246899998  9988899999999999999999987654432222 3333221         11235


Q ss_pred             cccHHHHHHHHHHHHhhhcc
Q 007255          230 GADLEALCREATMSAVKRSS  249 (611)
Q Consensus       230 ~~dl~~l~~~a~~~a~~r~~  249 (611)
                      ++.+.+++..|......|..
T Consensus       224 ~R~~~n~~e~a~~~~~~r~~  243 (261)
T TIGR02881       224 ARYVRNIIEKAIRRQAVRLL  243 (261)
T ss_pred             HHHHHHHHHHHHHHHHHHHh
Confidence            78888888888877665543

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>CHL00181 cbbX CbbX; Provisional

Probab=99.87  E-value=9e-21  Score=189.52  Aligned_cols=215  Identities=21%  Similarity=0.299  Sum_probs=159.5

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCC---ceEEEEcCCCCcHHHHHHHHHHHhC-------CcEEEEcccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWP---RGLLLYGPPGTGKTSLVRAVVRECG-------AHLTVISPHS   88 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~---~~iLl~Gp~GtGKT~la~~la~~l~-------~~~~~v~~~~   88 (611)
                      ++++|++++|++|.+++.. +...+...+.|..++   .+++|+||||||||++|+++|+.+.       .+++.++.++
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~-~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~  101 (287)
T CHL00181         23 EELVGLAPVKTRIREIAAL-LLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDD  101 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHH-HHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHH
Confidence            4799999999999998766 334466666777543   5699999999999999999998762       3588999888


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEe
Q 007255           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (611)
Q Consensus        89 ~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t  168 (611)
                      +...+.|.+......+++.+.       ++||||||+|.+...+ +..+...+.+..|+..|+...      .++++|++
T Consensus       102 l~~~~~g~~~~~~~~~l~~a~-------ggVLfIDE~~~l~~~~-~~~~~~~e~~~~L~~~me~~~------~~~~vI~a  167 (287)
T CHL00181        102 LVGQYIGHTAPKTKEVLKKAM-------GGVLFIDEAYYLYKPD-NERDYGSEAIEILLQVMENQR------DDLVVIFA  167 (287)
T ss_pred             HHHHHhccchHHHHHHHHHcc-------CCEEEEEccchhccCC-CccchHHHHHHHHHHHHhcCC------CCEEEEEe
Confidence            888888888777777777653       5799999999986543 223345678889999998642      24677777


Q ss_pred             ecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCccc-H----HHHHHhc--cCC-ccccHHH
Q 007255          169 TNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-L----EAIATSC--NGY-VGADLEA  235 (611)
Q Consensus       169 tn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~-~----~~la~~~--~g~-~~~dl~~  235 (611)
                      ++...     .++|++++  ||...|+|++|+.+++.+|+..++.......+.+ .    ..+....  ..+ +++++++
T Consensus       168 g~~~~~~~~~~~np~L~s--R~~~~i~F~~~t~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~~GNaR~vrn  245 (287)
T CHL00181        168 GYKDRMDKFYESNPGLSS--RIANHVDFPDYTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANARSVRN  245 (287)
T ss_pred             CCcHHHHHHHhcCHHHHH--hCCceEEcCCcCHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCCCccHHHHHH
Confidence            65421     34699998  9999999999999999999999987654332211 2    2222222  223 3799999


Q ss_pred             HHHHHHHHHhhhccc
Q 007255          236 LCREATMSAVKRSSD  250 (611)
Q Consensus       236 l~~~a~~~a~~r~~~  250 (611)
                      +++.+......|...
T Consensus       246 ~ve~~~~~~~~r~~~  260 (287)
T CHL00181        246 ALDRARMRQANRIFE  260 (287)
T ss_pred             HHHHHHHHHHHHHHc
Confidence            999988877666543

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.87  E-value=5e-22  Score=189.96  Aligned_cols=238  Identities=28%  Similarity=0.352  Sum_probs=176.6

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhc-CCCCCCCcceeCCCCCChHHHHHHHHHHh---------CCcEEeecc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRL-GISPVRGALLHGPPGCSKTTLAKAAAHAA---------EASFFSLSG  357 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~-~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---------~~~~~~~~~  357 (611)
                      -|+.++=-..+|+.|..+....+...+.--.- -+...+-+|++||||||||+|++|+|+.+         ...+++++.
T Consensus       140 lWEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins  219 (423)
T KOG0744|consen  140 LWESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS  219 (423)
T ss_pred             hHHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh
Confidence            36777666778888888776544332211100 12334668999999999999999999988         456899999


Q ss_pred             hhhccccccchHHHHHHHHHHHHhcC---Cc--EEEEcccccccccCC-CCCCCCcchhHHHHHHHHHHhcCCCCCCCeE
Q 007255          358 AELYSMYVGESEALLRNTFQRARLAA---PS--IIFFDEADVVGAKRG-GSSSTSITVGERLLSTLLTEMDGLEQAKGIL  431 (611)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~a~~~~---p~--il~iDeid~l~~~~~-~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  431 (611)
                      ..+.++|.+++.+.+..+|+......   .+  .++|||+++++..|. ..+..+....-|++|++|.+||.+...++++
T Consensus       220 hsLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~Nvl  299 (423)
T KOG0744|consen  220 HSLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNVL  299 (423)
T ss_pred             hHHHHHHHhhhhhHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCCEE
Confidence            99999999999999999999987643   22  667999999998883 3333333445699999999999999999999


Q ss_pred             EEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCC-----CCCC-------------cccHHHHHHh-C
Q 007255          432 VLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNM-----KVGD-------------DVDLRSIAEE-T  492 (611)
Q Consensus       432 vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~-----~~~~-------------~~~~~~la~~-~  492 (611)
                      +++|+|-.+.||.|+..  |-|.+.++++|+...|..|++.....+     -...             +.....+.+. +
T Consensus       300 iL~TSNl~~siD~AfVD--RADi~~yVG~Pt~~ai~~IlkscieEL~~~gIi~~~~~s~~~~~~i~~~~~~~~~~~~~~~  377 (423)
T KOG0744|consen  300 ILATSNLTDSIDVAFVD--RADIVFYVGPPTAEAIYEILKSCIEELISSGIILFHQRSTGVKEFIKYQKALRNILIELST  377 (423)
T ss_pred             EEeccchHHHHHHHhhh--HhhheeecCCccHHHHHHHHHHHHHHHHhcCeeeeeccchhhhHHhHhhHhHHHHHHHHhh
Confidence            99999999999999999  999999999999999999998554221     1111             1112334444 3


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHh
Q 007255          493 ELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKD  531 (611)
Q Consensus       493 ~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~  531 (611)
                      .|.||+.|+.+=-.|....    ...-+++..+|..++.
T Consensus       378 ~gLSGRtlrkLP~Laha~y----~~~~~v~~~~fl~al~  412 (423)
T KOG0744|consen  378 VGLSGRTLRKLPLLAHAEY----FRTFTVDLSNFLLALL  412 (423)
T ss_pred             cCCccchHhhhhHHHHHhc----cCCCccChHHHHHHHH
Confidence            7999998887655443322    2335688888887763

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=99.87  E-value=1.4e-21  Score=173.77  Aligned_cols=130  Identities=42%  Similarity=0.672  Sum_probs=116.2

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHHhcC-CcEEEEcccccccccCCCCCCC
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAA-PSIIFFDEADVVGAKRGGSSST  405 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~-p~il~iDeid~l~~~~~~~~~~  405 (611)
                      +||+||||||||++|+.+|+.++.+++.++++++.+.+.++....+..+|..++... |+||||||+|.+.++.   ...
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~---~~~   77 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKLFPKS---QPS   77 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGTSHHC---STS
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceeeeeccchhccccc---ccc
Confidence            589999999999999999999999999999999999999999999999999999888 9999999999999886   222


Q ss_pred             CcchhHHHHHHHHHHhcCCCCC-CCeEEEEecCCCcccchhccCCCCccceeecCC
Q 007255          406 SITVGERLLSTLLTEMDGLEQA-KGILVLAATNRPHAIDAALMRPGRFDLVLYVPP  460 (611)
Q Consensus       406 ~~~~~~~~~~~ll~~l~~~~~~-~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~  460 (611)
                      .......+.+.|+..++..... .++++|+|||.++.++++++| +||+..|++|+
T Consensus        78 ~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i~~~l~~-~rf~~~i~~~~  132 (132)
T PF00004_consen   78 SSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPDKIDPALLR-SRFDRRIEFPL  132 (132)
T ss_dssp             SSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGGGSCHHHHS-TTSEEEEEE-S
T ss_pred             cccccccccceeeecccccccccccceeEEeeCChhhCCHhHHh-CCCcEEEEcCC
Confidence            3455678899999999976654 569999999999999999998 89999999874

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.86  E-value=8.4e-21  Score=190.02  Aligned_cols=213  Identities=17%  Similarity=0.255  Sum_probs=164.0

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcCCCC---CCCcceeCCCCCChHHHHHHHHHHhC-------CcEEeecchhh
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISP---VRGALLHGPPGCSKTTLAKAAAHAAE-------ASFFSLSGAEL  360 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~---~~~~Ll~Gp~G~GKT~la~ala~~~~-------~~~~~~~~~~~  360 (611)
                      +++|++++|+++.+.+.+ +..+..+.+.|..+   ..+++|+||||||||++|+++|..+.       .+++.++++++
T Consensus        23 ~l~Gl~~vk~~i~e~~~~-~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l  101 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAAL-LLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDL  101 (284)
T ss_pred             hccCHHHHHHHHHHHHHH-HHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHH
Confidence            689999999999999887 55666777777764   45899999999999999999998872       37999999999


Q ss_pred             ccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCC-
Q 007255          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP-  439 (611)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~-  439 (611)
                      .+.|.|.++..+..+|+.+.   +++|||||++.+.+.+.     .......+.+.|+..|+.  ...++++|++++.. 
T Consensus       102 ~~~~~g~~~~~~~~~~~~a~---~gvL~iDEi~~L~~~~~-----~~~~~~~~~~~Ll~~le~--~~~~~~vI~a~~~~~  171 (284)
T TIGR02880       102 VGQYIGHTAPKTKEILKRAM---GGVLFIDEAYYLYRPDN-----ERDYGQEAIEILLQVMEN--QRDDLVVILAGYKDR  171 (284)
T ss_pred             hHhhcccchHHHHHHHHHcc---CcEEEEechhhhccCCC-----ccchHHHHHHHHHHHHhc--CCCCEEEEEeCCcHH
Confidence            99999998888888887763   46999999999864321     123456788899999983  45678888887653 


Q ss_pred             -c---ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHh------CCCC-CHHHHHHHHHHH
Q 007255          440 -H---AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEE------TELF-TGAELEGLCREA  507 (611)
Q Consensus       440 -~---~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~------~~g~-s~~~i~~~~~~a  507 (611)
                       +   .++|++.+  ||+..|.||.++.+++..|++.++++.... ++..+..+...      .+.+ +++++++++..+
T Consensus       172 ~~~~~~~np~L~s--R~~~~i~fp~l~~edl~~I~~~~l~~~~~~l~~~a~~~L~~~l~~~~~~~~~GN~R~lrn~ve~~  249 (284)
T TIGR02880       172 MDSFFESNPGFSS--RVAHHVDFPDYSEAELLVIAGLMLKEQQYRFSAEAEEAFADYIALRRTQPHFANARSIRNAIDRA  249 (284)
T ss_pred             HHHHHhhCHHHHh--hCCcEEEeCCcCHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHH
Confidence             2   25899999  999999999999999999999888775433 22223344332      1222 578999999988


Q ss_pred             HHHHHHhhc
Q 007255          508 GIVALREDI  516 (611)
Q Consensus       508 ~~~a~~~~~  516 (611)
                      ......+..
T Consensus       250 ~~~~~~r~~  258 (284)
T TIGR02880       250 RLRQANRLF  258 (284)
T ss_pred             HHHHHHHHh
Confidence            776665543

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=99.86  E-value=4e-21  Score=216.89  Aligned_cols=168  Identities=23%  Similarity=0.295  Sum_probs=135.8

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEee
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSL  355 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~  355 (611)
                      +-.+++++|.++....+.+.+..             +...+++|+||||||||++|+++|..+          +..++.+
T Consensus       178 ~~~l~~~igr~~ei~~~~~~L~~-------------~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~  244 (731)
T TIGR02639       178 NGKIDPLIGREDELERTIQVLCR-------------RKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSL  244 (731)
T ss_pred             cCCCCcccCcHHHHHHHHHHHhc-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEe
Confidence            44688899999888877776653             345689999999999999999999987          7889999


Q ss_pred             cchhhc--cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEE
Q 007255          356 SGAELY--SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVL  433 (611)
Q Consensus       356 ~~~~~~--~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI  433 (611)
                      +.+.+.  .+|.|+.+..++.+|+.++...|+||||||+|.+++.+...+ ++    ....+.|...|    ..+.+.+|
T Consensus       245 ~~~~l~a~~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~-~~----~~~~~~L~~~l----~~g~i~~I  315 (731)
T TIGR02639       245 DMGSLLAGTKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSG-GS----MDASNLLKPAL----SSGKLRCI  315 (731)
T ss_pred             cHHHHhhhccccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCC-cc----HHHHHHHHHHH----hCCCeEEE
Confidence            999887  489999999999999999877889999999999987653211 11    12334444444    35789999


Q ss_pred             EecCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCC
Q 007255          434 AATNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMK  478 (611)
Q Consensus       434 ~~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~  478 (611)
                      |+||..+     ++|+++.|  ||+ .|.++.|+.+++.+|++.....+.
T Consensus       316 gaTt~~e~~~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~il~~~~~~~e  362 (731)
T TIGR02639       316 GSTTYEEYKNHFEKDRALSR--RFQ-KIDVGEPSIEETVKILKGLKEKYE  362 (731)
T ss_pred             EecCHHHHHHHhhhhHHHHH--hCc-eEEeCCCCHHHHHHHHHHHHHHHH
Confidence            9999743     57999999  998 799999999999999997665543

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.86  E-value=1.6e-20  Score=187.99  Aligned_cols=218  Identities=21%  Similarity=0.272  Sum_probs=163.0

Q ss_pred             cccc-ccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCC---CceEEEEcCCCCcHHHHHHHHHHHhC-------CcEEEE
Q 007255           16 KAEE-AIGGNRAAVEALRELITFPLLYSSQAQKLGLKW---PRGLLLYGPPGTGKTSLVRAVVRECG-------AHLTVI   84 (611)
Q Consensus        16 ~~~~-~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~---~~~iLl~Gp~GtGKT~la~~la~~l~-------~~~~~v   84 (611)
                      ..++ +++|++++|+.|.+++.. ...++.+.+.|+..   ..+++|+||||||||++|+++|+.+.       .+++.+
T Consensus        18 ~~l~~~l~Gl~~vk~~i~e~~~~-~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v   96 (284)
T TIGR02880        18 DQLDRELIGLKPVKTRIREIAAL-LLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSV   96 (284)
T ss_pred             HHHHHhccCHHHHHHHHHHHHHH-HHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEe
Confidence            3444 799999999999998877 45566667778764   35899999999999999999988763       368899


Q ss_pred             cccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        85 ~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      ++.++...+.|.+...+..+|+.+.       +++|||||++.|.+..+ ......+.+..|+..|+...      .+++
T Consensus        97 ~~~~l~~~~~g~~~~~~~~~~~~a~-------~gvL~iDEi~~L~~~~~-~~~~~~~~~~~Ll~~le~~~------~~~~  162 (284)
T TIGR02880        97 TRDDLVGQYIGHTAPKTKEILKRAM-------GGVLFIDEAYYLYRPDN-ERDYGQEAIEILLQVMENQR------DDLV  162 (284)
T ss_pred             cHHHHhHhhcccchHHHHHHHHHcc-------CcEEEEechhhhccCCC-ccchHHHHHHHHHHHHhcCC------CCEE
Confidence            9888888888888777778887764       67999999999864332 22345577888999998642      2567


Q ss_pred             EEEeecCc--c---cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCccc-HHHHHHhc------c-CCccc
Q 007255          165 VVASTNRV--D---AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSC------N-GYVGA  231 (611)
Q Consensus       165 ii~ttn~~--~---~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~-~~~la~~~------~-g~~~~  231 (611)
                      +|++++..  +   .++|++.+  ||...|+||+|+.+++..|++.++......-+.+ ...+....      + --+++
T Consensus       163 vI~a~~~~~~~~~~~~np~L~s--R~~~~i~fp~l~~edl~~I~~~~l~~~~~~l~~~a~~~L~~~l~~~~~~~~~GN~R  240 (284)
T TIGR02880       163 VILAGYKDRMDSFFESNPGFSS--RVAHHVDFPDYSEAELLVIAGLMLKEQQYRFSAEAEEAFADYIALRRTQPHFANAR  240 (284)
T ss_pred             EEEeCCcHHHHHHHhhCHHHHh--hCCcEEEeCCcCHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCCCCChHH
Confidence            77776542  2   35899999  9999999999999999999999988754332222 33333321      1 13578


Q ss_pred             cHHHHHHHHHHHHhhhccc
Q 007255          232 DLEALCREATMSAVKRSSD  250 (611)
Q Consensus       232 dl~~l~~~a~~~a~~r~~~  250 (611)
                      .+++++..+......|...
T Consensus       241 ~lrn~ve~~~~~~~~r~~~  259 (284)
T TIGR02880       241 SIRNAIDRARLRQANRLFC  259 (284)
T ss_pred             HHHHHHHHHHHHHHHHHhc
Confidence            9999999998877776543

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=99.85  E-value=9e-21  Score=176.47  Aligned_cols=193  Identities=23%  Similarity=0.289  Sum_probs=132.5

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ...+.+++|++||++++..+.-++.....        ...+..++|||||||+|||++|+.+|++++.++..++++.+..
T Consensus        17 ~lRP~~L~efiGQ~~l~~~l~i~i~aa~~--------r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k   88 (233)
T PF05496_consen   17 RLRPKSLDEFIGQEHLKGNLKILIRAAKK--------RGEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEK   88 (233)
T ss_dssp             HTS-SSCCCS-S-HHHHHHHHHHHHHHHC--------TTS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--S
T ss_pred             hcCCCCHHHccCcHHHHhhhHHHHHHHHh--------cCCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhh
Confidence            34566899999999999998776653211        1133457999999999999999999999999999888765432


Q ss_pred             ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--------CC-------
Q 007255          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--------QA-------  427 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~-------  427 (611)
                        .++    +..++...  ....||||||||.+              ++.....|+..|+...        +.       
T Consensus        89 --~~d----l~~il~~l--~~~~ILFIDEIHRl--------------nk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~  146 (233)
T PF05496_consen   89 --AGD----LAAILTNL--KEGDILFIDEIHRL--------------NKAQQEILLPAMEDGKIDIIIGKGPNARSIRIN  146 (233)
T ss_dssp             --CHH----HHHHHHT----TT-EEEECTCCC----------------HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE
T ss_pred             --HHH----HHHHHHhc--CCCcEEEEechhhc--------------cHHHHHHHHHHhccCeEEEEeccccccceeecc
Confidence              122    33333333  34569999999988              3556677888887531        11       


Q ss_pred             -CCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCc-ccHHHHHHhCCCCCHHHHHHHHH
Q 007255          428 -KGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDD-VDLRSIAEETELFTGAELEGLCR  505 (611)
Q Consensus       428 -~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~g~s~~~i~~~~~  505 (611)
                       .++.+||||++...+.++|+.  ||.....+..++.++..+|++.......+.-+ ....++|..+.| |++-..++++
T Consensus       147 l~~FTligATTr~g~ls~pLrd--RFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrG-tPRiAnrll~  223 (233)
T PF05496_consen  147 LPPFTLIGATTRAGLLSSPLRD--RFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRG-TPRIANRLLR  223 (233)
T ss_dssp             ----EEEEEESSGCCTSHCCCT--TSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTT-SHHHHHHHHH
T ss_pred             CCCceEeeeeccccccchhHHh--hcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCC-ChHHHHHHHH
Confidence             258899999999999999998  99988899999999999999977777666533 447899999999 8888888877


Q ss_pred             HHH
Q 007255          506 EAG  508 (611)
Q Consensus       506 ~a~  508 (611)
                      .+.
T Consensus       224 rvr  226 (233)
T PF05496_consen  224 RVR  226 (233)
T ss_dssp             HHC
T ss_pred             HHH
Confidence            543

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.83  E-value=7e-20  Score=199.00  Aligned_cols=215  Identities=20%  Similarity=0.243  Sum_probs=186.8

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEee
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSL  355 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~  355 (611)
                      .-.++-++|.+.-.+++.+.+..             +..++-+|+|+||+|||+++..+|...          +..++.+
T Consensus       166 ~gklDPvIGRd~EI~r~iqIL~R-------------R~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sL  232 (786)
T COG0542         166 EGKLDPVIGRDEEIRRTIQILSR-------------RTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSL  232 (786)
T ss_pred             cCCCCCCcChHHHHHHHHHHHhc-------------cCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEe
Confidence            34577789998888888887764             556788999999999999999999887          6789999


Q ss_pred             cchhhcc--ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEE
Q 007255          356 SGAELYS--MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVL  433 (611)
Q Consensus       356 ~~~~~~~--~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI  433 (611)
                      +.+.+..  +|.|++|++++.+.+.++...+.||||||+|++.|..+..++ +++..+-++..|        ..+.+-+|
T Consensus       233 D~g~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~-a~DAaNiLKPaL--------ARGeL~~I  303 (786)
T COG0542         233 DLGSLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGG-AMDAANLLKPAL--------ARGELRCI  303 (786)
T ss_pred             cHHHHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCccccc-ccchhhhhHHHH--------hcCCeEEE
Confidence            9999886  799999999999999999888999999999999988655443 566666666665        77889999


Q ss_pred             EecCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHH
Q 007255          434 AATNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAG  508 (611)
Q Consensus       434 ~~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~  508 (611)
                      |+|+.-+     +.|+||.|  ||+ .|++..|+.++...|++....++..++.+.          |+...|.+++..+.
T Consensus       304 GATT~~EYRk~iEKD~AL~R--RFQ-~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~----------i~D~Al~aAv~LS~  370 (786)
T COG0542         304 GATTLDEYRKYIEKDAALER--RFQ-KVLVDEPSVEDTIAILRGLKERYEAHHGVR----------ITDEALVAAVTLSD  370 (786)
T ss_pred             EeccHHHHHHHhhhchHHHh--cCc-eeeCCCCCHHHHHHHHHHHHHHHHHccCce----------ecHHHHHHHHHHHH
Confidence            9998655     57999999  999 899999999999999999999999888887          88999999999999


Q ss_pred             HHHHHhhcccccccHHHHHHHHhhcCC
Q 007255          509 IVALREDISATAVRNRHFQTVKDSLKP  535 (611)
Q Consensus       509 ~~a~~~~~~~~~i~~~~~~~~l~~~~~  535 (611)
                      .+.-.++++++.|+.-|...+..+++.
T Consensus       371 RYI~dR~LPDKAIDLiDeA~a~~~l~~  397 (786)
T COG0542         371 RYIPDRFLPDKAIDLLDEAGARVRLEI  397 (786)
T ss_pred             hhcccCCCCchHHHHHHHHHHHHHhcc
Confidence            999999999999999999888877753

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=99.83  E-value=3.7e-20  Score=205.98  Aligned_cols=221  Identities=20%  Similarity=0.237  Sum_probs=161.7

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEeecc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSG  357 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~~~  357 (611)
                      .++.++|.+...+.+.+.+..             ....++||+||||||||++|+++|..+          ++.++.++.
T Consensus       184 ~~~~liGR~~ei~~~i~iL~r-------------~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~  250 (758)
T PRK11034        184 GIDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDI  250 (758)
T ss_pred             CCCcCcCCCHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccH
Confidence            466788988888888776653             334678999999999999999999875          677888888


Q ss_pred             hhhc--cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEe
Q 007255          358 AELY--SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAA  435 (611)
Q Consensus       358 ~~~~--~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~  435 (611)
                      +.+.  .+|.|+.+..++.+++.++...++||||||+|.|++.++..+ .+    ..+.+.|...+    ..+++.+||+
T Consensus       251 ~~llaG~~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~-g~----~d~~nlLkp~L----~~g~i~vIgA  321 (758)
T PRK11034        251 GSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASG-GQ----VDAANLIKPLL----SSGKIRVIGS  321 (758)
T ss_pred             HHHhcccchhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCC-cH----HHHHHHHHHHH----hCCCeEEEec
Confidence            7776  468999999999999999888889999999999987753211 11    22223332233    5678999999


Q ss_pred             cCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHH-----HhC-----CCCCHHHH
Q 007255          436 TNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIA-----EET-----ELFTGAEL  500 (611)
Q Consensus       436 tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la-----~~~-----~g~s~~~i  500 (611)
                      ||.++     ..|++|.|  ||+ .|.++.|+.+++..|++....++...+++.+...|     ..+     +-+-+...
T Consensus       322 Tt~~E~~~~~~~D~AL~r--RFq-~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdKa  398 (758)
T PRK11034        322 TTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKA  398 (758)
T ss_pred             CChHHHHHHhhccHHHHh--hCc-EEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHHH
Confidence            99875     57999999  997 89999999999999999988888777776643322     222     23445577


Q ss_pred             HHHHHHHHHHHHHhh--cccccccHHHHHHHHhhc
Q 007255          501 EGLCREAGIVALRED--ISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       501 ~~~~~~a~~~a~~~~--~~~~~i~~~~~~~~l~~~  533 (611)
                      ..++.+|+.......  .....++..|+..++.+.
T Consensus       399 idlldea~a~~~~~~~~~~~~~v~~~~i~~v~~~~  433 (758)
T PRK11034        399 IDVIDEAGARARLMPVSKRKKTVNVADIESVVARI  433 (758)
T ss_pred             HHHHHHHHHhhccCcccccccccChhhHHHHHHHH
Confidence            777777765432111  012346666777666554

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=99.82  E-value=1.7e-19  Score=167.94  Aligned_cols=184  Identities=24%  Similarity=0.361  Sum_probs=123.1

Q ss_pred             cccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccc
Q 007255           13 EKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA   92 (611)
Q Consensus        13 ~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~   92 (611)
                      ...+.|++++||++++..+.-++......        -....|+|||||||+||||+|+.+|++++.++..+++..+.. 
T Consensus        18 lRP~~L~efiGQ~~l~~~l~i~i~aa~~r--------~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k-   88 (233)
T PF05496_consen   18 LRPKSLDEFIGQEHLKGNLKILIRAAKKR--------GEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEK-   88 (233)
T ss_dssp             TS-SSCCCS-S-HHHHHHHHHHHHHHHCT--------TS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--S-
T ss_pred             cCCCCHHHccCcHHHHhhhHHHHHHHHhc--------CCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhh-
Confidence            34578999999999999988777543221        124469999999999999999999999999999888755422 


Q ss_pred             cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----C-------CCC
Q 007255           93 HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----K-------TSV  160 (611)
Q Consensus        93 ~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~-------~~~  160 (611)
                       .    ..+..++...      .++.||||||||.+..          ..+..|+..|+.+.-+     .       ...
T Consensus        89 -~----~dl~~il~~l------~~~~ILFIDEIHRlnk----------~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l  147 (233)
T PF05496_consen   89 -A----GDLAAILTNL------KEGDILFIDEIHRLNK----------AQQEILLPAMEDGKIDIIIGKGPNARSIRINL  147 (233)
T ss_dssp             -C----HHHHHHHHT--------TT-EEEECTCCC--H----------HHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE-
T ss_pred             -H----HHHHHHHHhc------CCCcEEEEechhhccH----------HHHHHHHHHhccCeEEEEeccccccceeeccC
Confidence             1    1222333222      2467999999999854          5678889999874321     0       123


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcc-cHHHHHHhccCC
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGY  228 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~-~~~~la~~~~g~  228 (611)
                      +++.+|++|+....++++++.  ||.....+..++.++..+|++.......+.-+. ...++|..+.|-
T Consensus       148 ~~FTligATTr~g~ls~pLrd--RFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrGt  214 (233)
T PF05496_consen  148 PPFTLIGATTRAGLLSSPLRD--RFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRGT  214 (233)
T ss_dssp             ---EEEEEESSGCCTSHCCCT--TSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTTS
T ss_pred             CCceEeeeeccccccchhHHh--hcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCCC
Confidence            568999999999999999998  999888999999999999999887776665433 367778777764

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=99.81  E-value=1.2e-18  Score=164.80  Aligned_cols=217  Identities=21%  Similarity=0.249  Sum_probs=164.9

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ...+.+|++.+|++.+|++|.-++...-.        .....-++|||||||.|||+||..+|+++|.++-..+++-+..
T Consensus        19 ~lRP~~l~efiGQ~~vk~~L~ifI~AAk~--------r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK   90 (332)
T COG2255          19 SLRPKTLDEFIGQEKVKEQLQIFIKAAKK--------RGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEK   90 (332)
T ss_pred             ccCcccHHHhcChHHHHHHHHHHHHHHHh--------cCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccC
Confidence            34456899999999999999988874322        2344568999999999999999999999999998888776644


Q ss_pred             ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC--------CCC-------
Q 007255          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL--------EQA-------  427 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~--------~~~-------  427 (611)
                        .|+    +-.++...  ...+|+||||||.+.+              .+-..|...|+.+        .+.       
T Consensus        91 --~gD----laaiLt~L--e~~DVLFIDEIHrl~~--------------~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ld  148 (332)
T COG2255          91 --PGD----LAAILTNL--EEGDVLFIDEIHRLSP--------------AVEEVLYPAMEDFRLDIIIGKGPAARSIRLD  148 (332)
T ss_pred             --hhh----HHHHHhcC--CcCCeEEEehhhhcCh--------------hHHHHhhhhhhheeEEEEEccCCccceEecc
Confidence              333    33333332  4557999999999832              2233444556543        111       


Q ss_pred             -CCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCc-ccHHHHHHhCCCCCHHHHHHHHH
Q 007255          428 -KGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDD-VDLRSIAEETELFTGAELEGLCR  505 (611)
Q Consensus       428 -~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~g~s~~~i~~~~~  505 (611)
                       ..+.+||+|++...+..+|+.  ||..+..+..++.++..+|+....+.+.+.-+ ....++|+++.| |++-...+++
T Consensus       149 LppFTLIGATTr~G~lt~PLrd--RFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRG-TPRIAnRLLr  225 (332)
T COG2255         149 LPPFTLIGATTRAGMLTNPLRD--RFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEIARRSRG-TPRIANRLLR  225 (332)
T ss_pred             CCCeeEeeeccccccccchhHH--hcCCeeeeecCCHHHHHHHHHHHHHHhCCCCChHHHHHHHHhccC-CcHHHHHHHH
Confidence             257899999999999999998  99999999999999999999988877777643 457899999999 8998899999


Q ss_pred             HHHHHHHHhhcccccccHHHHHHHHhhcC
Q 007255          506 EAGIVALREDISATAVRNRHFQTVKDSLK  534 (611)
Q Consensus       506 ~a~~~a~~~~~~~~~i~~~~~~~~l~~~~  534 (611)
                      .+...|..+.  ...|+..-...++..+.
T Consensus       226 RVRDfa~V~~--~~~I~~~ia~~aL~~L~  252 (332)
T COG2255         226 RVRDFAQVKG--DGDIDRDIADKALKMLD  252 (332)
T ss_pred             HHHHHHHHhc--CCcccHHHHHHHHHHhC
Confidence            8888887553  34566666666666654

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.81  E-value=3.5e-19  Score=202.19  Aligned_cols=183  Identities=22%  Similarity=0.260  Sum_probs=138.9

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEee
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSL  355 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~  355 (611)
                      +-.+++++|+++..+.+.+.+..             +...+++|+||||||||++|+++|..+          +..++.+
T Consensus       183 ~~~ld~~iGr~~ei~~~i~~l~r-------------~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l  249 (852)
T TIGR03345       183 EGKIDPVLGRDDEIRQMIDILLR-------------RRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSL  249 (852)
T ss_pred             CCCCCcccCCHHHHHHHHHHHhc-------------CCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEe
Confidence            45688999999987777666543             344689999999999999999999986          3568888


Q ss_pred             cchhhcc--ccccchHHHHHHHHHHHHh-cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEE
Q 007255          356 SGAELYS--MYVGESEALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILV  432 (611)
Q Consensus       356 ~~~~~~~--~~~g~~~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  432 (611)
                      +.+.+..  .|.|+.+..++.+++.++. ..+.||||||+|.+.+.++..+  +.+    ..+.|+..|    ..+.+.+
T Consensus       250 ~l~~l~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~--~~d----~~n~Lkp~l----~~G~l~~  319 (852)
T TIGR03345       250 DLGLLQAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAG--QGD----AANLLKPAL----ARGELRT  319 (852)
T ss_pred             ehhhhhcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccc--ccc----HHHHhhHHh----hCCCeEE
Confidence            8887763  6899999999999999875 4578999999999987754322  222    223333333    5678999


Q ss_pred             EEecCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCccc-----HHHHHHhCCC
Q 007255          433 LAATNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVD-----LRSIAEETEL  494 (611)
Q Consensus       433 I~~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~-----~~~la~~~~g  494 (611)
                      ||||+..+     .+|+||.|  ||+ .|.++.|+.+++..||+...+.+...+.+.     +..++..+.+
T Consensus       320 IgaTT~~e~~~~~~~d~AL~r--Rf~-~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~r  388 (852)
T TIGR03345       320 IAATTWAEYKKYFEKDPALTR--RFQ-VVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHR  388 (852)
T ss_pred             EEecCHHHHhhhhhccHHHHH--hCe-EEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHccc
Confidence            99999754     58999999  997 899999999999999987776665444333     4444444443

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.81  E-value=4.5e-19  Score=201.99  Aligned_cols=173  Identities=21%  Similarity=0.298  Sum_probs=137.3

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEee
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSL  355 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~  355 (611)
                      +-.++.++|.+...+.+.+.+..             +...+++|+||||||||++|+++|..+          +.+++.+
T Consensus       174 ~~~l~~vigr~~ei~~~i~iL~r-------------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l  240 (857)
T PRK10865        174 QGKLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL  240 (857)
T ss_pred             cCCCCcCCCCHHHHHHHHHHHhc-------------CCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEE
Confidence            34678899999887777776653             345689999999999999999999988          7889999


Q ss_pred             cchhhc--cccccchHHHHHHHHHHHHh-cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEE
Q 007255          356 SGAELY--SMYVGESEALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILV  432 (611)
Q Consensus       356 ~~~~~~--~~~~g~~~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  432 (611)
                      +.+.+.  .+|.|+.+..++.+|+.+.. ..++||||||+|.+.+.++..  ++.+.    .+.|...+    ..+.+.+
T Consensus       241 ~l~~l~ag~~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~--~~~d~----~~~lkp~l----~~g~l~~  310 (857)
T PRK10865        241 DMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKAD--GAMDA----GNMLKPAL----ARGELHC  310 (857)
T ss_pred             ehhhhhhccchhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCc--cchhH----HHHhcchh----hcCCCeE
Confidence            888876  46899999999999998654 568899999999998775422  22222    22232222    5678999


Q ss_pred             EEecCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCccc
Q 007255          433 LAATNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVD  484 (611)
Q Consensus       433 I~~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~  484 (611)
                      ||+|+.++     ++|+|+.|  ||+ .|.++.|+.+++..|++.....+...+.+.
T Consensus       311 IgaTt~~e~r~~~~~d~al~r--Rf~-~i~v~eP~~~~~~~iL~~l~~~~e~~~~v~  364 (857)
T PRK10865        311 VGATTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAILRGLKERYELHHHVQ  364 (857)
T ss_pred             EEcCCCHHHHHHhhhcHHHHh--hCC-EEEeCCCCHHHHHHHHHHHhhhhccCCCCC
Confidence            99999877     48999999  998 688999999999999998877776655443

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.80  E-value=1.7e-18  Score=174.92  Aligned_cols=181  Identities=25%  Similarity=0.345  Sum_probs=149.3

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      .+|+.++=-.+.|+.|.+=+.......+.+.+.|..+.++.|||||||||||+++.|+|+.++..++-++.++....   
T Consensus       198 stF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n---  274 (457)
T KOG0743|consen  198 STFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLD---  274 (457)
T ss_pred             CCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccccCc---
Confidence            67899999999999999999888999999999999999999999999999999999999999999988887665331   


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCch--------hhHHHHHHHHHHHhcCCCCCCCCCcEEEEE
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRRE--------QDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~--------~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~  167 (611)
                         ..++.++-...      ..+||+|+|||+-+..++...+        ...-.++.|++++|+....+.  ..-++|.
T Consensus       275 ---~dLr~LL~~t~------~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg--~ERIivF  343 (457)
T KOG0743|consen  275 ---SDLRHLLLATP------NKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCG--DERIIVF  343 (457)
T ss_pred             ---HHHHHHHHhCC------CCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCC--CceEEEE
Confidence               12666655443      3679999999987653321111        122456889999998766553  2468899


Q ss_pred             eecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCC
Q 007255          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV  210 (611)
Q Consensus       168 ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~  210 (611)
                      |||..+.|||||.||||++.+|++..-+......+++.++..-
T Consensus       344 TTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~  386 (457)
T KOG0743|consen  344 TTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIE  386 (457)
T ss_pred             ecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcCCC
Confidence            9999999999999999999999999999999999999988653

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=99.80  E-value=1.4e-18  Score=154.47  Aligned_cols=131  Identities=41%  Similarity=0.673  Sum_probs=112.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCC-CC
Q 007255           56 LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DH  134 (611)
Q Consensus        56 iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~-~~  134 (611)
                      |||+||||||||++++.+|+.++.+++.+++..+...+.+.....+..+|..+....   +|+||+|||+|.+.+.. ..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~---~~~vl~iDe~d~l~~~~~~~   77 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSA---KPCVLFIDEIDKLFPKSQPS   77 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTS---TSEEEEEETGGGTSHHCSTS
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccc---cceeeeeccchhcccccccc
Confidence            689999999999999999999999999999999998888899999999999986543   48999999999999876 23


Q ss_pred             CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccC
Q 007255          135 RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV  193 (611)
Q Consensus       135 ~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~  193 (611)
                      .......+++.|+..++.....   ..++++|+|||.++.+++++.+ +||+..+++|.
T Consensus        78 ~~~~~~~~~~~L~~~l~~~~~~---~~~~~vI~ttn~~~~i~~~l~~-~rf~~~i~~~~  132 (132)
T PF00004_consen   78 SSSFEQRLLNQLLSLLDNPSSK---NSRVIVIATTNSPDKIDPALLR-SRFDRRIEFPL  132 (132)
T ss_dssp             SSHHHHHHHHHHHHHHHTTTTT---SSSEEEEEEESSGGGSCHHHHS-TTSEEEEEE-S
T ss_pred             cccccccccceeeecccccccc---cccceeEEeeCChhhCCHhHHh-CCCcEEEEcCC
Confidence            4455667889999999976543   2369999999999999999996 79999998863

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.79  E-value=4.1e-18  Score=177.69  Aligned_cols=188  Identities=17%  Similarity=0.183  Sum_probs=144.2

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      .+.+.+|++++|++.+.+.|..++..            .+.++++||+||||||||++|+++|+.+++.           
T Consensus        11 KyRP~~f~dvVGQe~iv~~L~~~i~~------------~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C   78 (484)
T PRK14956         11 KYRPQFFRDVIHQDLAIGALQNALKS------------GKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNEC   78 (484)
T ss_pred             HhCCCCHHHHhChHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCC
Confidence            34567899999999999999988873            2345679999999999999999999999773           


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHH----hcCCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.++++.-      .....++.+.+.+.    .....|+||||+|.+              +...+
T Consensus        79 ~sC~~i~~g~~~dviEIdaas~------~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~L--------------s~~A~  138 (484)
T PRK14956         79 TSCLEITKGISSDVLEIDAASN------RGIENIRELRDNVKFAPMGGKYKVYIIDEVHML--------------TDQSF  138 (484)
T ss_pred             cHHHHHHccCCccceeechhhc------ccHHHHHHHHHHHHhhhhcCCCEEEEEechhhc--------------CHHHH
Confidence                         333333211      11234455544443    233459999999988              24578


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      ++||+.|+  ++...++||++|+.++.+.+++++  |+. .+.|..++.++..+.++..+...++. ++..+..+++.++
T Consensus       139 NALLKtLE--EPp~~viFILaTte~~kI~~TI~S--RCq-~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S~  213 (484)
T PRK14956        139 NALLKTLE--EPPAHIVFILATTEFHKIPETILS--RCQ-DFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGD  213 (484)
T ss_pred             HHHHHHhh--cCCCceEEEeecCChhhccHHHHh--hhh-eeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            99999998  577899999999999999999998  987 78899999988888888777665543 4456889999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 007255          494 LFTGAELEGLCREAG  508 (611)
Q Consensus       494 g~s~~~i~~~~~~a~  508 (611)
                      | +.++..+++..+.
T Consensus       214 G-d~RdAL~lLeq~i  227 (484)
T PRK14956        214 G-SVRDMLSFMEQAI  227 (484)
T ss_pred             C-hHHHHHHHHHHHH
Confidence            8 6788777776654

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=99.79  E-value=2.7e-18  Score=170.35  Aligned_cols=224  Identities=23%  Similarity=0.331  Sum_probs=152.8

Q ss_pred             cCCCcccccccchhHHH---HHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchh
Q 007255          283 EIPKVTWEDIGGLRDLK---KKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE  359 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k---~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~  359 (611)
                      ...+.++++++||+++.   +.|.+++..             ....+++||||||||||++|++||...++.|..+++..
T Consensus        17 rmRP~~lde~vGQ~HLlg~~~~lrr~v~~-------------~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~   83 (436)
T COG2256          17 RLRPKSLDEVVGQEHLLGEGKPLRRAVEA-------------GHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVT   83 (436)
T ss_pred             HhCCCCHHHhcChHhhhCCCchHHHHHhc-------------CCCceeEEECCCCCCHHHHHHHHHHhhCCceEEecccc
Confidence            34567899999999875   446666653             34468999999999999999999999999999998743


Q ss_pred             hccccccchHHHHHHHHHHHHhcC----CcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEe
Q 007255          360 LYSMYVGESEALLRNTFQRARLAA----PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAA  435 (611)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a~~~~----p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~  435 (611)
                             .+.+.++.+++.++...    ..||||||||.+-              +.-+..||-.++    .+.+++||+
T Consensus        84 -------~gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRfn--------------K~QQD~lLp~vE----~G~iilIGA  138 (436)
T COG2256          84 -------SGVKDLREIIEEARKNRLLGRRTILFLDEIHRFN--------------KAQQDALLPHVE----NGTIILIGA  138 (436)
T ss_pred             -------ccHHHHHHHHHHHHHHHhcCCceEEEEehhhhcC--------------hhhhhhhhhhhc----CCeEEEEec
Confidence                   34566889999986533    3699999999882              223456777774    678899988


Q ss_pred             cC--CCcccchhccCCCCccceeecCCCCHHHHHHHHHHHh--cCCCCC------CcccHHHHHHhCCCCCHHHHHHHHH
Q 007255          436 TN--RPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHT--RNMKVG------DDVDLRSIAEETELFTGAELEGLCR  505 (611)
Q Consensus       436 tn--~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~--~~~~~~------~~~~~~~la~~~~g~s~~~i~~~~~  505 (611)
                      |+  ....+.+|+++  |.. ++.+.+.+.++..++++..+  ....+.      ++..++.++..++|    |.+.+++
T Consensus       139 TTENPsF~ln~ALlS--R~~-vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~G----D~R~aLN  211 (436)
T COG2256         139 TTENPSFELNPALLS--RAR-VFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNG----DARRALN  211 (436)
T ss_pred             cCCCCCeeecHHHhh--hhh-eeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCc----hHHHHHH
Confidence            74  34589999998  876 88888999999999998632  222222      23446778887776    5555544


Q ss_pred             HHHHHHHHhhcccccccHHHHHHHHhhcCCCCCHH---HHHHHHHHhhcC
Q 007255          506 EAGIVALREDISATAVRNRHFQTVKDSLKPALTKE---EIDSYSSFMKSQ  552 (611)
Q Consensus       506 ~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~~~~~~---~~~~~~~~~~~~  552 (611)
                      ..-..+.... ....+..+.+...+.+..+..+..   -.+....|.+..
T Consensus       212 ~LE~~~~~~~-~~~~~~~~~l~~~l~~~~~~~Dk~gD~hYdliSA~hKSv  260 (436)
T COG2256         212 LLELAALSAE-PDEVLILELLEEILQRRSARFDKDGDAHYDLISALHKSV  260 (436)
T ss_pred             HHHHHHHhcC-CCcccCHHHHHHHHhhhhhccCCCcchHHHHHHHHHHhh
Confidence            3222222111 112344666777776554433322   245555555544

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.79  E-value=8.6e-19  Score=186.70  Aligned_cols=189  Identities=15%  Similarity=0.204  Sum_probs=145.2

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      ++.+.+|++|+|++.+++.|.+++..            .+.++.+||+||+|+|||++|+.+|+.++|.           
T Consensus         9 KYRPqtFddVIGQe~vv~~L~~al~~------------gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~   76 (700)
T PRK12323          9 KWRPRDFTTLVGQEHVVRALTHALEQ------------QRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQ   76 (700)
T ss_pred             HhCCCcHHHHcCcHHHHHHHHHHHHh------------CCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCC
Confidence            34567899999999999999999873            2456788999999999999999999999872           


Q ss_pred             ------------------EEeecchhhccccccchHHHHHHHHHHHH----hcCCcEEEEcccccccccCCCCCCCCcch
Q 007255          352 ------------------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITV  409 (611)
Q Consensus       352 ------------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~  409 (611)
                                        ++.+++++-      .....++.+.+.+.    .....|++|||+|.+              
T Consensus        77 PCG~C~sC~~I~aG~hpDviEIdAas~------~gVDdIReLie~~~~~P~~gr~KViIIDEah~L--------------  136 (700)
T PRK12323         77 PCGQCRACTEIDAGRFVDYIEMDAASN------RGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHML--------------  136 (700)
T ss_pred             CCcccHHHHHHHcCCCCcceEeccccc------CCHHHHHHHHHHHHhchhcCCceEEEEEChHhc--------------
Confidence                              233333211      11234555555443    233459999999988              


Q ss_pred             hHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCc-ccHHHH
Q 007255          410 GERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDD-VDLRSI  488 (611)
Q Consensus       410 ~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~-~~~~~l  488 (611)
                      +....|.||+.|+  ++..+++||++||.++.+.+.+++  |+. .+.|..++.++..+.++..+.+..+..+ ..+..+
T Consensus       137 s~~AaNALLKTLE--EPP~~v~FILaTtep~kLlpTIrS--RCq-~f~f~~ls~eei~~~L~~Il~~Egi~~d~eAL~~I  211 (700)
T PRK12323        137 TNHAFNAMLKTLE--EPPEHVKFILATTDPQKIPVTVLS--RCL-QFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLL  211 (700)
T ss_pred             CHHHHHHHHHhhc--cCCCCceEEEEeCChHhhhhHHHH--HHH-hcccCCCChHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            2457899999998  678899999999999999999998  986 8999999999999988877655544433 347888


Q ss_pred             HHhCCCCCHHHHHHHHHHHHH
Q 007255          489 AEETELFTGAELEGLCREAGI  509 (611)
Q Consensus       489 a~~~~g~s~~~i~~~~~~a~~  509 (611)
                      ++.++| +.++..+++..+..
T Consensus       212 A~~A~G-s~RdALsLLdQaia  231 (700)
T PRK12323        212 AQAAQG-SMRDALSLTDQAIA  231 (700)
T ss_pred             HHHcCC-CHHHHHHHHHHHHH
Confidence            999988 78888888776554

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.78  E-value=5.5e-18  Score=182.76  Aligned_cols=190  Identities=16%  Similarity=0.205  Sum_probs=146.4

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      ++.+.+|++|+|++.+++.|..++..            .+.++.+||+||+|||||++|+++|+.++|.           
T Consensus         9 KYRPqtFdEVIGQe~Vv~~L~~aL~~------------gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C   76 (830)
T PRK07003          9 KWRPKDFASLVGQEHVVRALTHALDG------------GRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVC   76 (830)
T ss_pred             HhCCCcHHHHcCcHHHHHHHHHHHhc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCccc
Confidence            34567899999999999999998873            2456778999999999999999999999763           


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.++.++      ......++.+++.+..    ....|+||||+|.|              +....
T Consensus        77 ~sCr~I~~G~h~DviEIDAas------~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~L--------------T~~A~  136 (830)
T PRK07003         77 RACREIDEGRFVDYVEMDAAS------NRGVDEMAALLERAVYAPVDARFKVYMIDEVHML--------------TNHAF  136 (830)
T ss_pred             HHHHHHhcCCCceEEEecccc------cccHHHHHHHHHHHHhccccCCceEEEEeChhhC--------------CHHHH
Confidence                         33333221      1122345555555432    23459999999988              24567


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      |.||+.|+  ++..++.||++||.++.|.+.+++  |+. .+.|..++.++..+.|+..+.+..+. ++..+..|++.++
T Consensus       137 NALLKtLE--EPP~~v~FILaTtd~~KIp~TIrS--RCq-~f~Fk~Ls~eeIv~~L~~Il~~EgI~id~eAL~lIA~~A~  211 (830)
T PRK07003        137 NAMLKTLE--EPPPHVKFILATTDPQKIPVTVLS--RCL-QFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQ  211 (830)
T ss_pred             HHHHHHHH--hcCCCeEEEEEECChhhccchhhh--heE-EEecCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            99999998  577889999999999999999998  996 89999999999999999877665554 4455888999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIV  510 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~  510 (611)
                      | +.++..+++..+..+
T Consensus       212 G-smRdALsLLdQAia~  227 (830)
T PRK07003        212 G-SMRDALSLTDQAIAY  227 (830)
T ss_pred             C-CHHHHHHHHHHHHHh
Confidence            8 678887777766543

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.78  E-value=3.3e-18  Score=195.93  Aligned_cols=209  Identities=19%  Similarity=0.229  Sum_probs=152.4

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEee
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSL  355 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~  355 (611)
                      +-.++.++|.+...+.+.+.+..             +..++++|+||||||||++|+++|..+          +.+++.+
T Consensus       169 ~~~~~~~igr~~ei~~~~~~l~r-------------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l  235 (852)
T TIGR03346       169 EGKLDPVIGRDEEIRRTIQVLSR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLAL  235 (852)
T ss_pred             CCCCCcCCCcHHHHHHHHHHHhc-------------CCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEe
Confidence            44678899999887777777653             445689999999999999999999986          6788999


Q ss_pred             cchhhc--cccccchHHHHHHHHHHHHhc-CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEE
Q 007255          356 SGAELY--SMYVGESEALLRNTFQRARLA-APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILV  432 (611)
Q Consensus       356 ~~~~~~--~~~~g~~~~~~~~~~~~a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  432 (611)
                      +.+.+.  .+|.|+.+..++.+++.+... .|+||||||+|.+.+.++..+  +    ....+.|...    -..+.+.+
T Consensus       236 ~~~~l~a~~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~--~----~d~~~~Lk~~----l~~g~i~~  305 (852)
T TIGR03346       236 DMGALIAGAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEG--A----MDAGNMLKPA----LARGELHC  305 (852)
T ss_pred             eHHHHhhcchhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcc--h----hHHHHHhchh----hhcCceEE
Confidence            888876  478999999999999998654 588999999999986543211  1    1222333222    35678999


Q ss_pred             EEecCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHH
Q 007255          433 LAATNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREA  507 (611)
Q Consensus       433 I~~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a  507 (611)
                      ||+||.++     .+|+++.|  ||+ .|.++.|+.+++..|++.....++..+.+.          ++...+..++..+
T Consensus       306 IgaTt~~e~r~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~----------~~d~~i~~~~~ls  372 (852)
T TIGR03346       306 IGATTLDEYRKYIEKDAALER--RFQ-PVFVDEPTVEDTISILRGLKERYEVHHGVR----------ITDPAIVAAATLS  372 (852)
T ss_pred             EEeCcHHHHHHHhhcCHHHHh--cCC-EEEeCCCCHHHHHHHHHHHHHHhccccCCC----------CCHHHHHHHHHhc
Confidence            99999874     47999999  997 689999999999999998888877766554          3344444444444


Q ss_pred             HHHHHHhhcccccccHHHHHHHH
Q 007255          508 GIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       508 ~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      ..+.-.+.++++.|+.-|...+.
T Consensus       373 ~~yi~~r~lPdkAidlld~a~a~  395 (852)
T TIGR03346       373 HRYITDRFLPDKAIDLIDEAAAR  395 (852)
T ss_pred             cccccccCCchHHHHHHHHHHHH
Confidence            44444444444444444444443

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.78  E-value=3.2e-18  Score=195.53  Aligned_cols=197  Identities=23%  Similarity=0.286  Sum_probs=148.8

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEeec
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLS  356 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~~  356 (611)
                      -.++.++|.+...+.+.+.+..             +.+++++|+||||||||++|+++|..+          +..++.++
T Consensus       176 ~~~~~~igr~~ei~~~~~~L~r-------------~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~  242 (821)
T CHL00095        176 GNLDPVIGREKEIERVIQILGR-------------RTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLD  242 (821)
T ss_pred             CCCCCCCCcHHHHHHHHHHHcc-------------cccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEee
Confidence            3578899999999988888763             455689999999999999999999987          47899999


Q ss_pred             chhhc--cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEE
Q 007255          357 GAELY--SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLA  434 (611)
Q Consensus       357 ~~~~~--~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~  434 (611)
                      ++.+.  .+|.|+.+..++.+++.++...++||||||+|.+++.++..+  ..+    +.+-|...+    ..+.+.+||
T Consensus       243 ~~~l~ag~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g--~~~----~a~lLkp~l----~rg~l~~Ig  312 (821)
T CHL00095        243 IGLLLAGTKYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEG--AID----AANILKPAL----ARGELQCIG  312 (821)
T ss_pred             HHHHhccCCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCC--ccc----HHHHhHHHH----hCCCcEEEE
Confidence            99887  479999999999999999888889999999999987754221  122    222222233    467899999


Q ss_pred             ecCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcC----CCC-CCcccHHHHHHhCCCCCH-----HH
Q 007255          435 ATNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRN----MKV-GDDVDLRSIAEETELFTG-----AE  499 (611)
Q Consensus       435 ~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~----~~~-~~~~~~~~la~~~~g~s~-----~~  499 (611)
                      +||..+     ..|+++.|  ||+ .|.++.|+.++...|++.....    ..+ .++..+..++..+.+|-+     ..
T Consensus       313 aTt~~ey~~~ie~D~aL~r--Rf~-~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~~r~lPdk  389 (821)
T CHL00095        313 ATTLDEYRKHIEKDPALER--RFQ-PVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRFLPDK  389 (821)
T ss_pred             eCCHHHHHHHHhcCHHHHh--cce-EEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCccccCchH
Confidence            999765     47999999  998 5899999999999999854432    222 234446777777776543     34


Q ss_pred             HHHHHHHHHH
Q 007255          500 LEGLCREAGI  509 (611)
Q Consensus       500 i~~~~~~a~~  509 (611)
                      ...++.+|+.
T Consensus       390 aidlld~a~a  399 (821)
T CHL00095        390 AIDLLDEAGS  399 (821)
T ss_pred             HHHHHHHHHH
Confidence            4455555544

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.78  E-value=2.3e-17  Score=169.80  Aligned_cols=233  Identities=20%  Similarity=0.234  Sum_probs=165.1

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      ..+.+|++++|++..++.+...+.....        ...++.+++||||||||||++|+++|++++..+...+.+.+.. 
T Consensus        19 ~rP~~~~~~vG~~~~~~~l~~~l~~~~~--------~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~-   89 (328)
T PRK00080         19 LRPKSLDEFIGQEKVKENLKIFIEAAKK--------RGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEK-   89 (328)
T ss_pred             cCcCCHHHhcCcHHHHHHHHHHHHHHHh--------cCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccC-
Confidence            3455899999999999999888753111        1245678999999999999999999999999887766553321 


Q ss_pred             cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC----------------CC
Q 007255          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE----------------QA  427 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~----------------~~  427 (611)
                           ...+..++...  ..++||||||+|.+...              ....|...|+...                .-
T Consensus        90 -----~~~l~~~l~~l--~~~~vl~IDEi~~l~~~--------------~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l  148 (328)
T PRK00080         90 -----PGDLAAILTNL--EEGDVLFIDEIHRLSPV--------------VEEILYPAMEDFRLDIMIGKGPAARSIRLDL  148 (328)
T ss_pred             -----hHHHHHHHHhc--ccCCEEEEecHhhcchH--------------HHHHHHHHHHhcceeeeeccCccccceeecC
Confidence                 12233344332  35679999999988311              1122333333210                11


Q ss_pred             CCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHH
Q 007255          428 KGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCRE  506 (611)
Q Consensus       428 ~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~  506 (611)
                      ..+.+|++||++..+++++.+  ||...+.++.|+.+++.+|++.......+. ++..+..+++.+.| +++.+..+++.
T Consensus       149 ~~~~li~at~~~~~l~~~L~s--Rf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G-~pR~a~~~l~~  225 (328)
T PRK00080        149 PPFTLIGATTRAGLLTSPLRD--RFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRG-TPRIANRLLRR  225 (328)
T ss_pred             CCceEEeecCCcccCCHHHHH--hcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCC-CchHHHHHHHH
Confidence            247889999999999999988  999899999999999999999777665554 33457899999998 56888888887


Q ss_pred             HHHHHHHhhcccccccHHHHHHHHhhcCCC---CCHHHHHHHHHHhhc
Q 007255          507 AGIVALREDISATAVRNRHFQTVKDSLKPA---LTKEEIDSYSSFMKS  551 (611)
Q Consensus       507 a~~~a~~~~~~~~~i~~~~~~~~l~~~~~~---~~~~~~~~~~~~~~~  551 (611)
                      +...+..+  ....++..+...++..+...   .+..+.+.+..+.+.
T Consensus       226 ~~~~a~~~--~~~~I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~  271 (328)
T PRK00080        226 VRDFAQVK--GDGVITKEIADKALDMLGVDELGLDEMDRKYLRTIIEK  271 (328)
T ss_pred             HHHHHHHc--CCCCCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHH
Confidence            77666544  24568888899888776543   444554544445444

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.77  E-value=8.4e-18  Score=165.58  Aligned_cols=210  Identities=26%  Similarity=0.376  Sum_probs=145.7

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~   96 (611)
                      +|++++-.-...+.|..+-.....     .+....+-++||||||||||||++++.+|+..|..+-.....++... -.+
T Consensus       353 pl~~ViL~psLe~Rie~lA~aTaN-----TK~h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAPl-G~q  426 (630)
T KOG0742|consen  353 PLEGVILHPSLEKRIEDLAIATAN-----TKKHQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAPL-GAQ  426 (630)
T ss_pred             CcCCeecCHHHHHHHHHHHHHhcc-----cccccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCcccc-chH
Confidence            355565555555555554322111     11122344899999999999999999999999998877777665432 124


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHH-HHHHHhcCCCCCCCCCcEEEEEeecCcccc
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQ-LFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~-ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l  175 (611)
                      ....+.++|+.++..   .++-+|||||+|.+...++..  ..++.+.. |..++-......   ..++++.+||.|.++
T Consensus       427 aVTkiH~lFDWakkS---~rGLllFIDEADAFLceRnkt--ymSEaqRsaLNAlLfRTGdqS---rdivLvlAtNrpgdl  498 (630)
T KOG0742|consen  427 AVTKIHKLFDWAKKS---RRGLLLFIDEADAFLCERNKT--YMSEAQRSALNALLFRTGDQS---RDIVLVLATNRPGDL  498 (630)
T ss_pred             HHHHHHHHHHHHhhc---ccceEEEehhhHHHHHHhchh--hhcHHHHHHHHHHHHHhcccc---cceEEEeccCCccch
Confidence            456788999998753   467899999999988766432  11122222 222222222111   158899999999999


Q ss_pred             cHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC---------------------------cccHHHHHHhccCC
Q 007255          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA---------------------------NVDLEAIATSCNGY  228 (611)
Q Consensus       176 ~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~---------------------------~~~~~~la~~~~g~  228 (611)
                      |-++..  |++..++||.|..++|..++..|+.++-...                           +.-+.+.+..|+||
T Consensus       499 DsAV~D--Ride~veFpLPGeEERfkll~lYlnkyi~~~~~~~~~~~~~~lfkk~sQ~i~l~~~~t~~~~~EaAkkTeGf  576 (630)
T KOG0742|consen  499 DSAVND--RIDEVVEFPLPGEEERFKLLNLYLNKYILKPATSGKPGKWSHLFKKESQRIKLAGFDTGRKCSEAAKKTEGF  576 (630)
T ss_pred             hHHHHh--hhhheeecCCCChHHHHHHHHHHHHHHhcCcCCCCCCchhhHHHhhhhheeeeccchHHHHHHHHHHhccCC
Confidence            999988  9999999999999999999998876532110                           01167888999999


Q ss_pred             ccccHHHHHHHHHH
Q 007255          229 VGADLEALCREATM  242 (611)
Q Consensus       229 ~~~dl~~l~~~a~~  242 (611)
                      +|++|..|+..+..
T Consensus       577 SGREiakLva~vQA  590 (630)
T KOG0742|consen  577 SGREIAKLVASVQA  590 (630)
T ss_pred             cHHHHHHHHHHHHH
Confidence            99999988876543

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.76  E-value=1.8e-17  Score=169.51  Aligned_cols=212  Identities=21%  Similarity=0.228  Sum_probs=150.3

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGE  367 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~  367 (611)
                      +|++++|++++++.|..++.....        ....+.+++|+||||||||++|+++|++++..+.....+....  .+ 
T Consensus         2 ~~~~~iG~~~~~~~l~~~l~~~~~--------~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~--~~-   70 (305)
T TIGR00635         2 LLAEFIGQEKVKEQLQLFIEAAKM--------RQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEK--PG-   70 (305)
T ss_pred             CHHHHcCHHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcC--ch-
Confidence            689999999999999888753211        1233567999999999999999999999998876665443221  11 


Q ss_pred             hHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC----------------CCCCeE
Q 007255          368 SEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE----------------QAKGIL  431 (611)
Q Consensus       368 ~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~----------------~~~~~~  431 (611)
                         .+...+..  ...+.++||||+|.+...              ....|+..|+...                ....+.
T Consensus        71 ---~l~~~l~~--~~~~~vl~iDEi~~l~~~--------------~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  131 (305)
T TIGR00635        71 ---DLAAILTN--LEEGDVLFIDEIHRLSPA--------------VEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFT  131 (305)
T ss_pred             ---hHHHHHHh--cccCCEEEEehHhhhCHH--------------HHHHhhHHHhhhheeeeeccCccccceeecCCCeE
Confidence               12222222  235679999999988421              2233443433211                123478


Q ss_pred             EEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 007255          432 VLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       432 vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~  510 (611)
                      +|++||++..+++++++  ||...+.+++|+.+++.++++......... ++..++.+++.+.|+ ++.+..++..+...
T Consensus       132 li~~t~~~~~l~~~l~s--R~~~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~-pR~~~~ll~~~~~~  208 (305)
T TIGR00635       132 LVGATTRAGMLTSPLRD--RFGIILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGT-PRIANRLLRRVRDF  208 (305)
T ss_pred             EEEecCCccccCHHHHh--hcceEEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCC-cchHHHHHHHHHHH
Confidence            99999999999999988  999889999999999999999776654443 344578899999994 57778888877655


Q ss_pred             HHHhhcccccccHHHHHHHHhhcC
Q 007255          511 ALREDISATAVRNRHFQTVKDSLK  534 (611)
Q Consensus       511 a~~~~~~~~~i~~~~~~~~l~~~~  534 (611)
                      +....  ...++.+++..++..+.
T Consensus       209 a~~~~--~~~it~~~v~~~l~~l~  230 (305)
T TIGR00635       209 AQVRG--QKIINRDIALKALEMLM  230 (305)
T ss_pred             HHHcC--CCCcCHHHHHHHHHHhC
Confidence            54332  35588888888887653

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.76  E-value=5.4e-18  Score=162.56  Aligned_cols=181  Identities=33%  Similarity=0.468  Sum_probs=140.7

Q ss_pred             cCCcHHHHHHHHHHHHhhhhCchHHH-hcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC---------CcEEEEcccccc
Q 007255           21 IGGNRAAVEALRELITFPLLYSSQAQ-KLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---------AHLTVISPHSVH   90 (611)
Q Consensus        21 i~G~~~~~~~l~~~l~~~~~~~~~~~-~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~---------~~~~~v~~~~~~   90 (611)
                      ++=-...|++|.......+...+..- ..=+.+++-+||+||||||||++++++|+.+.         ..+++++++.++
T Consensus       144 Liyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshsLF  223 (423)
T KOG0744|consen  144 LIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHSLF  223 (423)
T ss_pred             HhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhHHH
Confidence            33344567777766554443332211 11234668899999999999999999999984         468999999999


Q ss_pred             cccccchHHHHHHHHHHHHhhhhcCCC--eEEEEccccccCCCCC---CC--chhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           91 KAHVGESEKALREAFSQASSHALSGKP--SVVFIDEIDALCPRRD---HR--REQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~~~~~~~~~--~il~IDeid~l~~~~~---~~--~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      ++|++++.+.+.++|++....... ++  ..++|||++.|+..+.   ++  .....++++++++.+|..+.    .++|
T Consensus       224 SKWFsESgKlV~kmF~kI~ELv~d-~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~----~~Nv  298 (423)
T KOG0744|consen  224 SKWFSESGKLVAKMFQKIQELVED-RGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKR----YPNV  298 (423)
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHhC-CCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhcc----CCCE
Confidence            999999999999999998766532 33  3566999999987663   12  22345899999999998764    3479


Q ss_pred             EEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhc
Q 007255          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK  208 (611)
Q Consensus       164 ~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~  208 (611)
                      ++.+|+|-.+.+|.++-.  |-+.+.++.+|+...+.+|++..+.
T Consensus       299 liL~TSNl~~siD~AfVD--RADi~~yVG~Pt~~ai~~Ilkscie  341 (423)
T KOG0744|consen  299 LILATSNLTDSIDVAFVD--RADIVFYVGPPTAEAIYEILKSCIE  341 (423)
T ss_pred             EEEeccchHHHHHHHhhh--HhhheeecCCccHHHHHHHHHHHHH
Confidence            999999999999999988  9898999999999999999986553

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=99.76  E-value=3.3e-17  Score=156.79  Aligned_cols=195  Identities=20%  Similarity=0.206  Sum_probs=142.9

Q ss_pred             cccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC------cE
Q 007255          279 GVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA------SF  352 (611)
Q Consensus       279 ~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~------~~  352 (611)
                      .+...+.+.+++++.|++.+.+.|...+..             +...++|||||||||||+.|+++|.++++      .+
T Consensus        25 swteKYrPkt~de~~gQe~vV~~L~~a~~~-------------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rv   91 (346)
T KOG0989|consen   25 SWTEKYRPKTFDELAGQEHVVQVLKNALLR-------------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRV   91 (346)
T ss_pred             chHHHhCCCcHHhhcchHHHHHHHHHHHhh-------------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccch
Confidence            344556677899999999999999998874             22347999999999999999999999976      34


Q ss_pred             EeecchhhccccccchHHHHHHHHHHHHhc------CC----cEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhc
Q 007255          353 FSLSGAELYSMYVGESEALLRNTFQRARLA------AP----SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (611)
Q Consensus       353 ~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~------~p----~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~  422 (611)
                      ..+++++..+..++  ...++. |......      .|    .|+++||+|.+              .....++|.+.||
T Consensus        92 l~lnaSderGisvv--r~Kik~-fakl~~~~~~~~~~~~~~fKiiIlDEcdsm--------------tsdaq~aLrr~mE  154 (346)
T KOG0989|consen   92 LELNASDERGISVV--REKIKN-FAKLTVLLKRSDGYPCPPFKIIILDECDSM--------------TSDAQAALRRTME  154 (346)
T ss_pred             hhhcccccccccch--hhhhcC-HHHHhhccccccCCCCCcceEEEEechhhh--------------hHHHHHHHHHHHh
Confidence            55566665554322  122222 2222111      12    49999999987              3567899999998


Q ss_pred             CCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCC-cccHHHHHHhCCCCCHHHHH
Q 007255          423 GLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGD-DVDLRSIAEETELFTGAELE  501 (611)
Q Consensus       423 ~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~-~~~~~~la~~~~g~s~~~i~  501 (611)
                      .  ....+.||..||+++.|...+.+  |+. .+.|+....+...+.|+.+..+..+.- +..+..++..++| +-++..
T Consensus       155 ~--~s~~trFiLIcnylsrii~pi~S--RC~-KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S~G-dLR~Ai  228 (346)
T KOG0989|consen  155 D--FSRTTRFILICNYLSRIIRPLVS--RCQ-KFRFKKLKDEDIVDRLEKIASKEGVDIDDDALKLIAKISDG-DLRRAI  228 (346)
T ss_pred             c--cccceEEEEEcCChhhCChHHHh--hHH-HhcCCCcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCC-cHHHHH
Confidence            4  56778899999999999999998  888 778887777788888887777666653 3457889998887 555555


Q ss_pred             HHHHHHHH
Q 007255          502 GLCREAGI  509 (611)
Q Consensus       502 ~~~~~a~~  509 (611)
                      ..++.+..
T Consensus       229 t~Lqsls~  236 (346)
T KOG0989|consen  229 TTLQSLSL  236 (346)
T ss_pred             HHHHHhhc
Confidence            55555544

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.76  E-value=2e-17  Score=176.84  Aligned_cols=190  Identities=17%  Similarity=0.231  Sum_probs=145.4

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      .+.+.+|++|+|++.+++.|..++..            .+.++++||+||+|||||++|+++|+.++|.           
T Consensus         8 KyRPktFddVIGQe~vv~~L~~aI~~------------grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C   75 (702)
T PRK14960          8 KYRPRNFNELVGQNHVSRALSSALER------------GRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVC   75 (702)
T ss_pred             HhCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccC
Confidence            34567899999999999999998873            3456789999999999999999999999762           


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.+++++-      .....++.+...+..    ....|++|||+|.+-              ....
T Consensus        76 ~sC~~I~~g~hpDviEIDAAs~------~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS--------------~~A~  135 (702)
T PRK14960         76 ATCKAVNEGRFIDLIEIDAASR------TKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLS--------------THSF  135 (702)
T ss_pred             HHHHHHhcCCCCceEEeccccc------CCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcC--------------HHHH
Confidence                         344443321      123345555554432    234599999999882              3467


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.|++.|+  ++++.+.||++|+.+..+.+.+++  |+. ++.|..++.++..+.++..+.+.++. .+..+..+++.+.
T Consensus       136 NALLKtLE--EPP~~v~FILaTtd~~kIp~TIlS--RCq-~feFkpLs~eEI~k~L~~Il~kEgI~id~eAL~~IA~~S~  210 (702)
T PRK14960        136 NALLKTLE--EPPEHVKFLFATTDPQKLPITVIS--RCL-QFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQ  210 (702)
T ss_pred             HHHHHHHh--cCCCCcEEEEEECChHhhhHHHHH--hhh-eeeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            89999998  466788888999999999888887  886 89999999999999998777665554 3455888999988


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIV  510 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~  510 (611)
                      | +.+++.+++..+..+
T Consensus       211 G-dLRdALnLLDQaIay  226 (702)
T PRK14960        211 G-SLRDALSLTDQAIAY  226 (702)
T ss_pred             C-CHHHHHHHHHHHHHh
Confidence            8 788888887766543

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=99.75  E-value=3.5e-17  Score=155.03  Aligned_cols=183  Identities=27%  Similarity=0.404  Sum_probs=140.3

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccc
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH   93 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~   93 (611)
                      ..+.|++.+|++++|+.|.-++.....+.        ...-|+||+||||.||||+|..+|+++|.++...+...+..  
T Consensus        21 RP~~l~efiGQ~~vk~~L~ifI~AAk~r~--------e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK--   90 (332)
T COG2255          21 RPKTLDEFIGQEKVKEQLQIFIKAAKKRG--------EALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEK--   90 (332)
T ss_pred             CcccHHHhcChHHHHHHHHHHHHHHHhcC--------CCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccC--
Confidence            35788999999999999999887643322        35579999999999999999999999999998888766543  


Q ss_pred             ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCC------------CCCCCCC
Q 007255           94 VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK------------PSKTSVP  161 (611)
Q Consensus        94 ~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~------------~~~~~~~  161 (611)
                      +++    +..++...      ....||||||||.+.+          .+...|+..|+.+.            ...-..+
T Consensus        91 ~gD----laaiLt~L------e~~DVLFIDEIHrl~~----------~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLp  150 (332)
T COG2255          91 PGD----LAAILTNL------EEGDVLFIDEIHRLSP----------AVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLP  150 (332)
T ss_pred             hhh----HHHHHhcC------CcCCeEEEehhhhcCh----------hHHHHhhhhhhheeEEEEEccCCccceEeccCC
Confidence            121    22333222      2467999999999976          34556667777632            1112346


Q ss_pred             cEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcc-cHHHHHHhccCC
Q 007255          162 HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGY  228 (611)
Q Consensus       162 ~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~-~~~~la~~~~g~  228 (611)
                      ++.+|++|++...+...|+.  ||.....+..++.++..+|++.....+.+..+. ...++|.++.|-
T Consensus       151 pFTLIGATTr~G~lt~PLrd--RFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRGT  216 (332)
T COG2255         151 PFTLIGATTRAGMLTNPLRD--RFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEIARRSRGT  216 (332)
T ss_pred             CeeEeeeccccccccchhHH--hcCCeeeeecCCHHHHHHHHHHHHHHhCCCCChHHHHHHHHhccCC
Confidence            78999999999999999999  999999999999999999999887766655433 367777777764

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.75  E-value=4.5e-17  Score=179.09  Aligned_cols=188  Identities=16%  Similarity=0.190  Sum_probs=142.6

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF----------  352 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~----------  352 (611)
                      ++.+.+|++|+|++.+++.|..++..            .+.++.+||+||||||||++|+++|+.+++..          
T Consensus         9 KyRP~tFddIIGQe~Iv~~LknaI~~------------~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C   76 (944)
T PRK14949          9 KWRPATFEQMVGQSHVLHALTNALTQ------------QRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVC   76 (944)
T ss_pred             HhCCCCHHHhcCcHHHHHHHHHHHHh------------CCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCc
Confidence            34567899999999999999988763            24567789999999999999999999998751          


Q ss_pred             --------------EeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          353 --------------FSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       353 --------------~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                    +.+++.+      ......++.+.+.+..    ....|+||||+|.+              ....+
T Consensus        77 ~sC~~i~~g~~~DviEidAas------~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~L--------------T~eAq  136 (944)
T PRK14949         77 SSCVEIAQGRFVDLIEVDAAS------RTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHML--------------SRSSF  136 (944)
T ss_pred             hHHHHHhcCCCceEEEecccc------ccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhc--------------CHHHH
Confidence                          1111110      0112334555544432    23459999999988              35678


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.||+.|+  ++++.+.||++|+.+..|.+.+++  |+. ++.|..++.++....++..+....+. .+..+..+++.+.
T Consensus       137 NALLKtLE--EPP~~vrFILaTTe~~kLl~TIlS--RCq-~f~fkpLs~eEI~~~L~~il~~EgI~~edeAL~lIA~~S~  211 (944)
T PRK14949        137 NALLKTLE--EPPEHVKFLLATTDPQKLPVTVLS--RCL-QFNLKSLTQDEIGTQLNHILTQEQLPFEAEALTLLAKAAN  211 (944)
T ss_pred             HHHHHHHh--ccCCCeEEEEECCCchhchHHHHH--hhe-EEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            99999998  678889999999999999999888  885 89999999999998888766554433 3345788999998


Q ss_pred             CCCHHHHHHHHHHHH
Q 007255          494 LFTGAELEGLCREAG  508 (611)
Q Consensus       494 g~s~~~i~~~~~~a~  508 (611)
                      | +.+++.++|..+.
T Consensus       212 G-d~R~ALnLLdQal  225 (944)
T PRK14949        212 G-SMRDALSLTDQAI  225 (944)
T ss_pred             C-CHHHHHHHHHHHH
Confidence            8 7888888887655

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.74  E-value=4.5e-17  Score=173.04  Aligned_cols=204  Identities=16%  Similarity=0.173  Sum_probs=147.6

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC-------------
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-------------  350 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~-------------  350 (611)
                      +.+.+|++++|++++++.|...+..            ...++++||+||||||||++|+++|+.+++             
T Consensus         8 yRP~~~~divGq~~i~~~L~~~i~~------------~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~   75 (472)
T PRK14962          8 YRPKTFSEVVGQDHVKKLIINALKK------------NSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECR   75 (472)
T ss_pred             HCCCCHHHccCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccH
Confidence            4567899999999999999888763            245567999999999999999999999876             


Q ss_pred             -----------cEEeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHH
Q 007255          351 -----------SFFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLS  415 (611)
Q Consensus       351 -----------~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~  415 (611)
                                 .++.++++.-      ..-..++.+...+..    ....|+||||+|.+.              ...++
T Consensus        76 ~c~~i~~g~~~dv~el~aa~~------~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt--------------~~a~~  135 (472)
T PRK14962         76 ACRSIDEGTFMDVIELDAASN------RGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLT--------------KEAFN  135 (472)
T ss_pred             HHHHHhcCCCCccEEEeCccc------CCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhH--------------HHHHH
Confidence                       3444444311      112345555555442    223599999999882              34568


Q ss_pred             HHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCC
Q 007255          416 TLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETEL  494 (611)
Q Consensus       416 ~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g  494 (611)
                      .|+..|+  .+++.+++|++|+.|+.+++++.+  |+. .+.|.+++.++...+++..+...++. ++..+..+++.+.|
T Consensus       136 ~LLk~LE--~p~~~vv~Ilattn~~kl~~~L~S--R~~-vv~f~~l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s~G  210 (472)
T PRK14962        136 ALLKTLE--EPPSHVVFVLATTNLEKVPPTIIS--RCQ-VIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASG  210 (472)
T ss_pred             HHHHHHH--hCCCcEEEEEEeCChHhhhHHHhc--CcE-EEEECCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCC
Confidence            8888888  456778888888889999999998  886 89999999999999999776554433 34557888888776


Q ss_pred             CCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHh
Q 007255          495 FTGAELEGLCREAGIVALREDISATAVRNRHFQTVKD  531 (611)
Q Consensus       495 ~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~  531 (611)
                       +.+.+.+.+..+...+      ...|+.+++..++.
T Consensus       211 -dlR~aln~Le~l~~~~------~~~It~e~V~~~l~  240 (472)
T PRK14962        211 -GLRDALTMLEQVWKFS------EGKITLETVHEALG  240 (472)
T ss_pred             -CHHHHHHHHHHHHHhc------CCCCCHHHHHHHHc
Confidence             5556555555433321      12377777777664

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=99.74  E-value=5.1e-17  Score=161.34  Aligned_cols=177  Identities=24%  Similarity=0.386  Sum_probs=134.6

Q ss_pred             ccccccccCCcHHHH---HHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc
Q 007255           14 KWKAEEAIGGNRAAV---EALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH   90 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~---~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~   90 (611)
                      ..+.+++++||+..+   ..|.+++..             ....+++|||||||||||+++.+|...+..|..+|+... 
T Consensus        19 RP~~lde~vGQ~HLlg~~~~lrr~v~~-------------~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~~-   84 (436)
T COG2256          19 RPKSLDEVVGQEHLLGEGKPLRRAVEA-------------GHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTS-   84 (436)
T ss_pred             CCCCHHHhcChHhhhCCCchHHHHHhc-------------CCCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccccc-
Confidence            457899999999886   344454432             234689999999999999999999999999999997653 


Q ss_pred             cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee-
Q 007255           91 KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST-  169 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt-  169 (611)
                            ..+.++.+++.+.+....++..||||||||.+..          .-+..|+-.++..        .+++|++| 
T Consensus        85 ------gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK----------~QQD~lLp~vE~G--------~iilIGATT  140 (436)
T COG2256          85 ------GVKDLREIIEEARKNRLLGRRTILFLDEIHRFNK----------AQQDALLPHVENG--------TIILIGATT  140 (436)
T ss_pred             ------cHHHHHHHHHHHHHHHhcCCceEEEEehhhhcCh----------hhhhhhhhhhcCC--------eEEEEeccC
Confidence                  3456889999998777678889999999999854          3467788888753        47788776 


Q ss_pred             -cCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhc--CCCCC------CcccHHHHHHhccCCccc
Q 007255          170 -NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK--KVPLD------ANVDLEAIATSCNGYVGA  231 (611)
Q Consensus       170 -n~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~--~~~~~------~~~~~~~la~~~~g~~~~  231 (611)
                       |+.-.+++++++  |+. ++.+.+.+.++..++++.-+.  ..++.      .+.-++.++..++|-..+
T Consensus       141 ENPsF~ln~ALlS--R~~-vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~  208 (436)
T COG2256         141 ENPSFELNPALLS--RAR-VFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARR  208 (436)
T ss_pred             CCCCeeecHHHhh--hhh-eeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHH
Confidence             445699999999  874 789999999999999987332  22222      222467777777765333

>TIGR00763 lon ATP-dependent protease La

Probab=99.74  E-value=3.8e-17  Score=185.63  Aligned_cols=164  Identities=25%  Similarity=0.347  Sum_probs=126.1

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc--------
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY--------  361 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~--------  361 (611)
                      +++.|++.+++.+.+++......       +...+.+++|+||||||||++|+++|+.++.+++.++.+.+.        
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~-------~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~  392 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLR-------GKMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGH  392 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhh-------cCCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCC
Confidence            35889999999999987643211       112234699999999999999999999999999988765432        


Q ss_pred             -cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC-----C--------CC
Q 007255          362 -SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL-----E--------QA  427 (611)
Q Consensus       362 -~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~-----~--------~~  427 (611)
                       ..|.|...+.+.+.|..+....| |+||||||.+.+...          ....+.|+..||..     .        ..
T Consensus       393 ~~~~~g~~~g~i~~~l~~~~~~~~-villDEidk~~~~~~----------~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~  461 (775)
T TIGR00763       393 RRTYVGAMPGRIIQGLKKAKTKNP-LFLLDEIDKIGSSFR----------GDPASALLEVLDPEQNNAFSDHYLDVPFDL  461 (775)
T ss_pred             CCceeCCCCchHHHHHHHhCcCCC-EEEEechhhcCCccC----------CCHHHHHHHhcCHHhcCccccccCCceecc
Confidence             25777777777788887766666 999999999964311          11246677776631     1        12


Q ss_pred             CCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHh
Q 007255          428 KGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHT  474 (611)
Q Consensus       428 ~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~  474 (611)
                      .+++||+|||.++.+++++++  ||+ +|.|+.|+.+++.+|++.++
T Consensus       462 s~v~~I~TtN~~~~i~~~L~~--R~~-vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       462 SKVIFIATANSIDTIPRPLLD--RME-VIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             CCEEEEEecCCchhCCHHHhC--Cee-EEecCCCCHHHHHHHHHHHH
Confidence            478999999999999999999  996 89999999999999998765

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.74  E-value=6.7e-17  Score=175.61  Aligned_cols=187  Identities=17%  Similarity=0.227  Sum_probs=143.7

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc------------
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS------------  351 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------------  351 (611)
                      +.+.+|++|+|++.+++.|...+..            .+.++.+||+||+|||||++|+++|+.++|.            
T Consensus        10 yRP~~f~divGQe~vv~~L~~~l~~------------~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~   77 (647)
T PRK07994         10 WRPQTFAEVVGQEHVLTALANALDL------------GRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECD   77 (647)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCH
Confidence            4567899999999999999988873            2455678999999999999999999999774            


Q ss_pred             ------------EEeecchhhccccccchHHHHHHHHHHHH----hcCCcEEEEcccccccccCCCCCCCCcchhHHHHH
Q 007255          352 ------------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLS  415 (611)
Q Consensus       352 ------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~  415 (611)
                                  ++.+++++      ......++.+.+.+.    .....|+||||+|.+              +....+
T Consensus        78 ~C~~i~~g~~~D~ieidaas------~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~L--------------s~~a~N  137 (647)
T PRK07994         78 NCREIEQGRFVDLIEIDAAS------RTKVEDTRELLDNVQYAPARGRFKVYLIDEVHML--------------SRHSFN  137 (647)
T ss_pred             HHHHHHcCCCCCceeecccc------cCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhC--------------CHHHHH
Confidence                        22233221      011233555554443    223459999999988              356789


Q ss_pred             HHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCC
Q 007255          416 TLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETEL  494 (611)
Q Consensus       416 ~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g  494 (611)
                      .||+.|+  ++++.+.||++|+.++.+.+.+++  |+. .+.|..++.++....++..+....+. .+..+..++..++|
T Consensus       138 ALLKtLE--EPp~~v~FIL~Tt~~~kLl~TI~S--RC~-~~~f~~Ls~~ei~~~L~~il~~e~i~~e~~aL~~Ia~~s~G  212 (647)
T PRK07994        138 ALLKTLE--EPPEHVKFLLATTDPQKLPVTILS--RCL-QFHLKALDVEQIRQQLEHILQAEQIPFEPRALQLLARAADG  212 (647)
T ss_pred             HHHHHHH--cCCCCeEEEEecCCccccchHHHh--hhe-EeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Confidence            9999999  688899999999999999999998  885 89999999999999998777554443 33557889999988


Q ss_pred             CCHHHHHHHHHHHH
Q 007255          495 FTGAELEGLCREAG  508 (611)
Q Consensus       495 ~s~~~i~~~~~~a~  508 (611)
                       +.+++.+++..+.
T Consensus       213 -s~R~Al~lldqai  225 (647)
T PRK07994        213 -SMRDALSLTDQAI  225 (647)
T ss_pred             -CHHHHHHHHHHHH
Confidence             7888888876654

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.74  E-value=2.2e-17  Score=177.26  Aligned_cols=190  Identities=14%  Similarity=0.172  Sum_probs=144.8

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      .+.+.+|++++|++.+++.|..++..            .+.++.+||+||+|||||++|+++|+.++|.           
T Consensus         9 kyRP~~f~divGq~~v~~~L~~~~~~------------~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C   76 (509)
T PRK14958          9 KWRPRCFQEVIGQAPVVRALSNALDQ------------QYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDC   76 (509)
T ss_pred             HHCCCCHHHhcCCHHHHHHHHHHHHh------------CCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCC
Confidence            35567899999999999999999873            2456789999999999999999999999764           


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.+++++      ......++.+.+.+..    ....|++|||+|.+.              ....
T Consensus        77 ~~C~~i~~g~~~d~~eidaas------~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls--------------~~a~  136 (509)
T PRK14958         77 ENCREIDEGRFPDLFEVDAAS------RTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLS--------------GHSF  136 (509)
T ss_pred             HHHHHHhcCCCceEEEEcccc------cCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcC--------------HHHH
Confidence                         44444332      1122345555555432    223599999999882              4567


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.|++.|+  ++++.+.||++|+.++.+.+.+++  |+. .+.|..++.++....++..+++.++. .+..+..+++.+.
T Consensus       137 naLLk~LE--epp~~~~fIlattd~~kl~~tI~S--Rc~-~~~f~~l~~~~i~~~l~~il~~egi~~~~~al~~ia~~s~  211 (509)
T PRK14958        137 NALLKTLE--EPPSHVKFILATTDHHKLPVTVLS--RCL-QFHLAQLPPLQIAAHCQHLLKEENVEFENAALDLLARAAN  211 (509)
T ss_pred             HHHHHHHh--ccCCCeEEEEEECChHhchHHHHH--Hhh-hhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            99999998  577789999999999999888887  885 78898888988888887776655544 3445788999988


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIV  510 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~  510 (611)
                      | +.+++.+++..+..+
T Consensus       212 G-slR~al~lLdq~ia~  227 (509)
T PRK14958        212 G-SVRDALSLLDQSIAY  227 (509)
T ss_pred             C-cHHHHHHHHHHHHhc
Confidence            7 888888888776543

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=99.73  E-value=3.8e-17  Score=171.48  Aligned_cols=164  Identities=25%  Similarity=0.383  Sum_probs=132.0

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc-------
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-------  362 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~-------  362 (611)
                      +|-.|++++|+.+.+++....-.       |-....-++|+||||+|||+++++||..+|..|+.++.+-+.+       
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLr-------gs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGH  483 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLR-------GSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGH  483 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhc-------ccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhccc
Confidence            45679999999999998741111       2233455789999999999999999999999999998865543       


Q ss_pred             --ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-------------CC
Q 007255          363 --MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-------------QA  427 (611)
Q Consensus       363 --~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-------------~~  427 (611)
                        -|+|.-.+.+-++++..+..+| +++|||||.+.+  +..+    ++    .++||..||.-.             .-
T Consensus       484 RRTYVGAMPGkiIq~LK~v~t~NP-liLiDEvDKlG~--g~qG----DP----asALLElLDPEQNanFlDHYLdVp~DL  552 (906)
T KOG2004|consen  484 RRTYVGAMPGKIIQCLKKVKTENP-LILIDEVDKLGS--GHQG----DP----ASALLELLDPEQNANFLDHYLDVPVDL  552 (906)
T ss_pred             ceeeeccCChHHHHHHHhhCCCCc-eEEeehhhhhCC--CCCC----Ch----HHHHHHhcChhhccchhhhccccccch
Confidence              3999999999999999999999 999999999962  2222    22    266777776311             12


Q ss_pred             CCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHh
Q 007255          428 KGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHT  474 (611)
Q Consensus       428 ~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~  474 (611)
                      .+++||+|+|..+.|+++|+.  |++ +|.++-+..++...|-+.++
T Consensus       553 SkVLFicTAN~idtIP~pLlD--RME-vIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  553 SKVLFICTANVIDTIPPPLLD--RME-VIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             hheEEEEeccccccCChhhhh--hhh-eeeccCccHHHHHHHHHHhh
Confidence            379999999999999999999  998 99999999999999999775

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.73  E-value=5.4e-17  Score=171.42  Aligned_cols=204  Identities=18%  Similarity=0.208  Sum_probs=153.5

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      .+.+.+|+|++|++.+++.|...+..            .+.++++||+||+|+|||++|+++|..++|.           
T Consensus         6 KyRP~~f~dliGQe~vv~~L~~a~~~------------~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C   73 (491)
T PRK14964          6 KYRPSSFKDLVGQDVLVRILRNAFTL------------NKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTC   73 (491)
T ss_pred             HhCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCcccc
Confidence            34567899999999999999988773            2556899999999999999999999987542           


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.+++++-      .+...++.+.+.+...    ...|++|||+|.+.              ...+
T Consensus        74 ~~C~~i~~~~~~Dv~eidaas~------~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls--------------~~A~  133 (491)
T PRK14964         74 HNCISIKNSNHPDVIEIDAASN------TSVDDIKVILENSCYLPISSKFKVYIIDEVHMLS--------------NSAF  133 (491)
T ss_pred             HHHHHHhccCCCCEEEEecccC------CCHHHHHHHHHHHHhccccCCceEEEEeChHhCC--------------HHHH
Confidence                         344444321      1234466666665432    23599999999882              3567


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.|++.|+  ++++.+.+|++|+.++.+.+.+++  |+. .+.|..++.++....++..+.+.++. ++..+..+++.+.
T Consensus       134 NaLLK~LE--ePp~~v~fIlatte~~Kl~~tI~S--Rc~-~~~f~~l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~  208 (491)
T PRK14964        134 NALLKTLE--EPAPHVKFILATTEVKKIPVTIIS--RCQ-RFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSS  208 (491)
T ss_pred             HHHHHHHh--CCCCCeEEEEEeCChHHHHHHHHH--hhe-eeecccccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            89999998  577889999999999999999988  886 78999999999999999777665554 4456888999988


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      | +.+++.+.+..+..+.-      ..|+.+++...+
T Consensus       209 G-slR~alslLdqli~y~~------~~It~e~V~~ll  238 (491)
T PRK14964        209 G-SMRNALFLLEQAAIYSN------NKISEKSVRDLL  238 (491)
T ss_pred             C-CHHHHHHHHHHHHHhcC------CCCCHHHHHHHH
Confidence            7 78888888877665431      235555554443

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.73  E-value=1e-16  Score=166.83  Aligned_cols=204  Identities=16%  Similarity=0.180  Sum_probs=148.2

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF----------  352 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~----------  352 (611)
                      .+.+.+|++|+|++.+++.+...+..            .+.++++||+||||+|||++|+++|+.+++..          
T Consensus         9 kyrP~~~~~iiGq~~~~~~l~~~~~~------------~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c   76 (363)
T PRK14961          9 KWRPQYFRDIIGQKHIVTAISNGLSL------------GRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKC   76 (363)
T ss_pred             HhCCCchhhccChHHHHHHHHHHHHc------------CCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCC
Confidence            34567899999999999999988863            24567789999999999999999999987532          


Q ss_pred             --------------EeecchhhccccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          353 --------------FSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       353 --------------~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                    +.+++++      ......++.+...+...    ...|++|||+|.+.              ....
T Consensus        77 ~~c~~~~~~~~~d~~~~~~~~------~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~--------------~~a~  136 (363)
T PRK14961         77 IICKEIEKGLCLDLIEIDAAS------RTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLS--------------RHSF  136 (363)
T ss_pred             HHHHHHhcCCCCceEEecccc------cCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcC--------------HHHH
Confidence                          1122110      01223455665554322    23499999999872              3456


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.|++.++  ++++.+.+|++|+.++.+.+++.+  |+. .+.|++|+.++..++++..++..+.. ++..+..++..+.
T Consensus       137 naLLk~lE--e~~~~~~fIl~t~~~~~l~~tI~S--Rc~-~~~~~~l~~~el~~~L~~~~~~~g~~i~~~al~~ia~~s~  211 (363)
T PRK14961        137 NALLKTLE--EPPQHIKFILATTDVEKIPKTILS--RCL-QFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAH  211 (363)
T ss_pred             HHHHHHHh--cCCCCeEEEEEcCChHhhhHHHHh--hce-EEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            88999998  466788888889989999999887  885 89999999999999999777665543 4456788898888


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      | +.+++.+.+..+....      ...++.+++..++
T Consensus       212 G-~~R~al~~l~~~~~~~------~~~It~~~v~~~l  241 (363)
T PRK14961        212 G-SMRDALNLLEHAINLG------KGNINIKNVTDML  241 (363)
T ss_pred             C-CHHHHHHHHHHHHHhc------CCCCCHHHHHHHH
Confidence            7 7888888777665331      2345665555544

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.72  E-value=5e-16  Score=158.81  Aligned_cols=193  Identities=26%  Similarity=0.359  Sum_probs=136.2

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~   96 (611)
                      .|++++|++++++.|..++.....        ....+.+++|+||||||||++++++|++++..+..++......     
T Consensus         2 ~~~~~iG~~~~~~~l~~~l~~~~~--------~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~-----   68 (305)
T TIGR00635         2 LLAEFIGQEKVKEQLQLFIEAAKM--------RQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEK-----   68 (305)
T ss_pred             CHHHHcCHHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcC-----
Confidence            578999999999999988754221        1234578999999999999999999999998876665443211     


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC------------CCCCCcEE
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS------------KTSVPHVV  164 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~------------~~~~~~v~  164 (611)
                       ...+...+..      ...+.+|||||+|.+.+          .....|+..++.....            ....+++.
T Consensus        69 -~~~l~~~l~~------~~~~~vl~iDEi~~l~~----------~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  131 (305)
T TIGR00635        69 -PGDLAAILTN------LEEGDVLFIDEIHRLSP----------AVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFT  131 (305)
T ss_pred             -chhHHHHHHh------cccCCEEEEehHhhhCH----------HHHHHhhHHHhhhheeeeeccCccccceeecCCCeE
Confidence             1112222222      12467999999998864          2334456666543210            01223478


Q ss_pred             EEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCccccHHHHHHHHHH
Q 007255          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREATM  242 (611)
Q Consensus       165 ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~~~dl~~l~~~a~~  242 (611)
                      +|++||.+..+++++++  ||...+.+++|+.+++.++++..+......- +..+..++..+.|+. +.+..++..+..
T Consensus       132 li~~t~~~~~l~~~l~s--R~~~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~p-R~~~~ll~~~~~  207 (305)
T TIGR00635       132 LVGATTRAGMLTSPLRD--RFGIILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTP-RIANRLLRRVRD  207 (305)
T ss_pred             EEEecCCccccCHHHHh--hcceEEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCc-chHHHHHHHHHH
Confidence            89999999999999998  9988889999999999999998876554432 234788899888875 555666665543

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.72  E-value=3.1e-16  Score=167.18  Aligned_cols=199  Identities=21%  Similarity=0.238  Sum_probs=148.7

Q ss_pred             cccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee-----
Q 007255          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL-----  355 (611)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~-----  355 (611)
                      ...+.+.+|++++|++.+.+.|...+..            .+.++++||+||||||||++|+++|+.+++..-..     
T Consensus        12 a~kyRP~~f~dliGq~~vv~~L~~ai~~------------~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~   79 (507)
T PRK06645         12 ARKYRPSNFAELQGQEVLVKVLSYTILN------------DRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTI   79 (507)
T ss_pred             hhhhCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCc
Confidence            3345677899999999999999987763            25567899999999999999999999997632100     


Q ss_pred             -------cch--------hhccc--cccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          356 -------SGA--------ELYSM--YVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       356 -------~~~--------~~~~~--~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                             ++.        ++..-  ....+...++.+++.+...    ...|++|||+|.+.              ...+
T Consensus        80 ~~C~~C~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls--------------~~a~  145 (507)
T PRK06645         80 KTCEQCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLS--------------KGAF  145 (507)
T ss_pred             CCCCCChHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcC--------------HHHH
Confidence                   000        11100  0111344567777666532    23599999999872              3567


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.|++.|+  +++..++||++|+.++.+.+++.+  |+. .+.|..++.++...+++..+++.++. ++..+..+++.++
T Consensus       146 naLLk~LE--epp~~~vfI~aTte~~kI~~tI~S--Rc~-~~ef~~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~  220 (507)
T PRK06645        146 NALLKTLE--EPPPHIIFIFATTEVQKIPATIIS--RCQ-RYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSE  220 (507)
T ss_pred             HHHHHHHh--hcCCCEEEEEEeCChHHhhHHHHh--cce-EEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            88999998  577788999999999999999988  885 88999999999999999887766554 3355788999998


Q ss_pred             CCCHHHHHHHHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIVA  511 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~a  511 (611)
                      | +.+++.+.+..+...+
T Consensus       221 G-slR~al~~Ldkai~~~  237 (507)
T PRK06645        221 G-SARDAVSILDQAASMS  237 (507)
T ss_pred             C-CHHHHHHHHHHHHHhh
Confidence            8 8888888888776543

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.71  E-value=6.9e-16  Score=158.87  Aligned_cols=197  Identities=25%  Similarity=0.342  Sum_probs=140.0

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccc
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~   94 (611)
                      ...|++++|+++.++.|..++.....        .-.++.+++|+||||||||++++++|++++..+..++...+..   
T Consensus        21 P~~~~~~vG~~~~~~~l~~~l~~~~~--------~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~---   89 (328)
T PRK00080         21 PKSLDEFIGQEKVKENLKIFIEAAKK--------RGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEK---   89 (328)
T ss_pred             cCCHHHhcCcHHHHHHHHHHHHHHHh--------cCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccC---
Confidence            36889999999999999988754211        1235679999999999999999999999998877766543321   


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC------------CCCCCc
Q 007255           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS------------KTSVPH  162 (611)
Q Consensus        95 ~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~------------~~~~~~  162 (611)
                         ...+..++...      ..++||||||+|.+..          .....++..++.....            ....++
T Consensus        90 ---~~~l~~~l~~l------~~~~vl~IDEi~~l~~----------~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~  150 (328)
T PRK00080         90 ---PGDLAAILTNL------EEGDVLFIDEIHRLSP----------VVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPP  150 (328)
T ss_pred             ---hHHHHHHHHhc------ccCCEEEEecHhhcch----------HHHHHHHHHHHhcceeeeeccCccccceeecCCC
Confidence               12233333322      2477999999998854          2233345555543110            001234


Q ss_pred             EEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCccccHHHHHHHHH
Q 007255          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       163 v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                      +.+|++||....+++++++  ||...+.+++|+.+++.+|++..........+ ..+..++..+.|.. +.+..+++.+.
T Consensus       151 ~~li~at~~~~~l~~~L~s--Rf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~p-R~a~~~l~~~~  227 (328)
T PRK00080        151 FTLIGATTRAGLLTSPLRD--RFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTP-RIANRLLRRVR  227 (328)
T ss_pred             ceEEeecCCcccCCHHHHH--hcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCc-hHHHHHHHHHH
Confidence            7889999999999999998  99888999999999999999988776654432 34788899888865 55666666554


Q ss_pred             HHH
Q 007255          242 MSA  244 (611)
Q Consensus       242 ~~a  244 (611)
                      ..+
T Consensus       228 ~~a  230 (328)
T PRK00080        228 DFA  230 (328)
T ss_pred             HHH
Confidence            433

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.70  E-value=3.6e-16  Score=169.66  Aligned_cols=190  Identities=16%  Similarity=0.216  Sum_probs=143.7

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      ++.+.+|++++|++.+++.|..++..            .+.++.+||+||+|||||++|+++|+.++|.           
T Consensus         9 KyRP~~f~dviGQe~vv~~L~~~l~~------------~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~   76 (618)
T PRK14951          9 KYRPRSFSEMVGQEHVVQALTNALTQ------------QRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITAT   76 (618)
T ss_pred             HHCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCC
Confidence            34567899999999999999998873            2456778999999999999999999999762           


Q ss_pred             ------------------EEeecchhhccccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcch
Q 007255          352 ------------------FFSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITV  409 (611)
Q Consensus       352 ------------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~  409 (611)
                                        ++.+++++      ......++.+.+.+...    ...|++|||+|.+.             
T Consensus        77 pCg~C~~C~~i~~g~h~D~~eldaas------~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls-------------  137 (618)
T PRK14951         77 PCGVCQACRDIDSGRFVDYTELDAAS------NRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLT-------------  137 (618)
T ss_pred             CCCccHHHHHHHcCCCCceeecCccc------ccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCC-------------
Confidence                              22222221      11223456666554322    23499999999882             


Q ss_pred             hHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHH
Q 007255          410 GERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSI  488 (611)
Q Consensus       410 ~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~l  488 (611)
                       ...++.|++.|+  ++.+.+.||++|+.++.+.+.+++  |+. .+.|..++.++..+.++..+.+.++. ++..+..|
T Consensus       138 -~~a~NaLLKtLE--EPP~~~~fIL~Ttd~~kil~TIlS--Rc~-~~~f~~Ls~eei~~~L~~i~~~egi~ie~~AL~~L  211 (618)
T PRK14951        138 -NTAFNAMLKTLE--EPPEYLKFVLATTDPQKVPVTVLS--RCL-QFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLL  211 (618)
T ss_pred             -HHHHHHHHHhcc--cCCCCeEEEEEECCchhhhHHHHH--hce-eeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence             456789999998  577888899999999999888887  885 89999999999999998777655554 33457889


Q ss_pred             HHhCCCCCHHHHHHHHHHHHHH
Q 007255          489 AEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       489 a~~~~g~s~~~i~~~~~~a~~~  510 (611)
                      ++.++| +.+++.+++..+..+
T Consensus       212 a~~s~G-slR~al~lLdq~ia~  232 (618)
T PRK14951        212 ARAARG-SMRDALSLTDQAIAF  232 (618)
T ss_pred             HHHcCC-CHHHHHHHHHHHHHh
Confidence            999888 788888877665543

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.70  E-value=2.3e-16  Score=170.45  Aligned_cols=190  Identities=17%  Similarity=0.234  Sum_probs=145.3

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF----------  352 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~----------  352 (611)
                      ++.+.+|++|+|++.+++.|..++..            .+.++++||+||+|||||++|+++|+.+++.-          
T Consensus         9 KYRP~tFddIIGQe~vv~~L~~ai~~------------~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C   76 (709)
T PRK08691          9 KWRPKTFADLVGQEHVVKALQNALDE------------GRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVC   76 (709)
T ss_pred             HhCCCCHHHHcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCccc
Confidence            34567899999999999999998873            25567899999999999999999999987642          


Q ss_pred             --------------EeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          353 --------------FSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       353 --------------~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                    +.++++      .+.....++.+++.+..    ....|++|||+|.+              .....
T Consensus        77 ~sCr~i~~g~~~DvlEidaA------s~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~L--------------s~~A~  136 (709)
T PRK08691         77 QSCTQIDAGRYVDLLEIDAA------SNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHML--------------SKSAF  136 (709)
T ss_pred             HHHHHHhccCccceEEEecc------ccCCHHHHHHHHHHHHhhhhhCCcEEEEEECcccc--------------CHHHH
Confidence                          112111      11223456666665432    23459999999977              24567


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.||+.|+  ++.+.+.||++|+.+..+.+.+++  |+. .+.|+.++.++....++..+.+.++. ++..+..|++.+.
T Consensus       137 NALLKtLE--EPp~~v~fILaTtd~~kL~~TIrS--RC~-~f~f~~Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A~  211 (709)
T PRK08691        137 NAMLKTLE--EPPEHVKFILATTDPHKVPVTVLS--RCL-QFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAA  211 (709)
T ss_pred             HHHHHHHH--hCCCCcEEEEEeCCccccchHHHH--HHh-hhhcCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHhC
Confidence            89999998  466788889999999999888886  885 78888999999999998887766554 3445889999988


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIV  510 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~  510 (611)
                      | +.+++.+++..+..+
T Consensus       212 G-slRdAlnLLDqaia~  227 (709)
T PRK08691        212 G-SMRDALSLLDQAIAL  227 (709)
T ss_pred             C-CHHHHHHHHHHHHHh
Confidence            7 788888888776654

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.70  E-value=4.7e-15  Score=163.76  Aligned_cols=163  Identities=24%  Similarity=0.351  Sum_probs=113.0

Q ss_pred             ccccCCc-HHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEcc
Q 007255           18 EEAIGGN-RAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVISP   86 (611)
Q Consensus        18 ~~~i~G~-~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~~   86 (611)
                      ++.++|. ++.+..+.+.+..             +..+|-+|+|.||+|||.++.-+|+..          +..++.++.
T Consensus       185 ldPvigr~deeirRvi~iL~R-------------rtk~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~  251 (898)
T KOG1051|consen  185 LDPVIGRHDEEIRRVIEILSR-------------KTKNNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDF  251 (898)
T ss_pred             CCCccCCchHHHHHHHHHHhc-------------cCCCCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEh
Confidence            5677777 7777777776632             344788899999999999999999876          234556665


Q ss_pred             cccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           87 HSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        87 ~~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      ..+.  ..+.++.+..++.+.+.+..   .+.+.||||||+|.+.......+  .....+.|-..+..        +.+.
T Consensus       252 g~l~aGa~~rge~E~rlk~l~k~v~~---~~~gvILfigelh~lvg~g~~~~--~~d~~nlLkp~L~r--------g~l~  318 (898)
T KOG1051|consen  252 GSLVAGAKRRGEFEERLKELLKEVES---GGGGVILFLGELHWLVGSGSNYG--AIDAANLLKPLLAR--------GGLW  318 (898)
T ss_pred             hhcccCcccchHHHHHHHHHHHHHhc---CCCcEEEEecceeeeecCCCcch--HHHHHHhhHHHHhc--------CCeE
Confidence            5333  44567788888888887764   33578999999999987654411  22233333333322        1378


Q ss_pred             EEEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcC
Q 007255          165 VVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK  209 (611)
Q Consensus       165 ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~  209 (611)
                      +|++|+...     .-+|++.+  ||+ .+.++.|+..+...|+......
T Consensus       319 ~IGatT~e~Y~k~iekdPalEr--rw~-l~~v~~pS~~~~~~iL~~l~~~  365 (898)
T KOG1051|consen  319 CIGATTLETYRKCIEKDPALER--RWQ-LVLVPIPSVENLSLILPGLSER  365 (898)
T ss_pred             EEecccHHHHHHHHhhCcchhh--Ccc-eeEeccCcccchhhhhhhhhhh
Confidence            898877422     44899998  997 7789999988877777765444

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.70  E-value=7.1e-16  Score=161.05  Aligned_cols=189  Identities=19%  Similarity=0.228  Sum_probs=138.1

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc--------------
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--------------   80 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~--------------   80 (611)
                      ...|++++|++.+++.|..++..            -+.+..+||+||+|||||++|+.+|+.+++.              
T Consensus        14 P~~f~dvVGQe~iv~~L~~~i~~------------~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC   81 (484)
T PRK14956         14 PQFFRDVIHQDLAIGALQNALKS------------GKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSC   81 (484)
T ss_pred             CCCHHHHhChHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHH
Confidence            37899999999999999888754            1234568999999999999999999998763              


Q ss_pred             ----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHH
Q 007255           81 ----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (611)
Q Consensus        81 ----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l  150 (611)
                                ++.+++..      ......++.+.+.+......++..|+||||+|.|..          ..++.|+..+
T Consensus        82 ~~i~~g~~~dviEIdaas------~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~----------~A~NALLKtL  145 (484)
T PRK14956         82 LEITKGISSDVLEIDAAS------NRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTD----------QSFNALLKTL  145 (484)
T ss_pred             HHHHccCCccceeechhh------cccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCH----------HHHHHHHHHh
Confidence                      12222110      111234555555554444445677999999998854          5678889998


Q ss_pred             hcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCc
Q 007255          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYV  229 (611)
Q Consensus       151 ~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~  229 (611)
                      ++      ++.++++|.+|+.++.+.+.+++  |+. .+.|..++.++..+.++..+...++. .+..+..++..++|- 
T Consensus       146 EE------Pp~~viFILaTte~~kI~~TI~S--RCq-~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S~Gd-  215 (484)
T PRK14956        146 EE------PPAHIVFILATTEFHKIPETILS--RCQ-DFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGS-  215 (484)
T ss_pred             hc------CCCceEEEeecCChhhccHHHHh--hhh-eeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCh-
Confidence            76      33468889999999999999999  985 79999999999999999888766544 233477788877765 


Q ss_pred             cccHHHHHHHHH
Q 007255          230 GADLEALCREAT  241 (611)
Q Consensus       230 ~~dl~~l~~~a~  241 (611)
                      .|+..++++.+.
T Consensus       216 ~RdAL~lLeq~i  227 (484)
T PRK14956        216 VRDMLSFMEQAI  227 (484)
T ss_pred             HHHHHHHHHHHH
Confidence            455555555443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.69  E-value=2.8e-16  Score=163.16  Aligned_cols=185  Identities=21%  Similarity=0.260  Sum_probs=133.9

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE---------------
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF---------------  352 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~---------------  352 (611)
                      .|++|+|++.+++.|++.+.....+.   ...+.+.++++||+||||+|||++|+++|..+.+..               
T Consensus         3 ~f~~IiGq~~~~~~L~~~i~~~~~~~---~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~   79 (394)
T PRK07940          3 VWDDLVGQEAVVAELRAAARAARADV---AAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTV   79 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhccccc---cccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHH
Confidence            58999999999999999998644322   122344678999999999999999999999886642               


Q ss_pred             --------EeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHH
Q 007255          353 --------FSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTE  420 (611)
Q Consensus       353 --------~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~  420 (611)
                              ..+.+..   .  .-.-..++.+++.+..    ....|+||||+|.+.              ....+.||+.
T Consensus        80 ~~~~hpD~~~i~~~~---~--~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~--------------~~aanaLLk~  140 (394)
T PRK07940         80 LAGTHPDVRVVAPEG---L--SIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLT--------------ERAANALLKA  140 (394)
T ss_pred             hcCCCCCEEEecccc---c--cCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcC--------------HHHHHHHHHH
Confidence                    1111110   0  1123347777777653    223599999999882              4456899999


Q ss_pred             hcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHH
Q 007255          421 MDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAEL  500 (611)
Q Consensus       421 l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i  500 (611)
                      |+  ++++++++|.+|+.++.+.|++++  |+. .+.|++|+.++..+.+....   .+ +......++..+.|..+..+
T Consensus       141 LE--ep~~~~~fIL~a~~~~~llpTIrS--Rc~-~i~f~~~~~~~i~~~L~~~~---~~-~~~~a~~la~~s~G~~~~A~  211 (394)
T PRK07940        141 VE--EPPPRTVWLLCAPSPEDVLPTIRS--RCR-HVALRTPSVEAVAEVLVRRD---GV-DPETARRAARASQGHIGRAR  211 (394)
T ss_pred             hh--cCCCCCeEEEEECChHHChHHHHh--hCe-EEECCCCCHHHHHHHHHHhc---CC-CHHHHHHHHHHcCCCHHHHH
Confidence            98  566777777788889999999998  886 99999999999888876321   22 23456788899999665554


Q ss_pred             HHH
Q 007255          501 EGL  503 (611)
Q Consensus       501 ~~~  503 (611)
                      .-+
T Consensus       212 ~l~  214 (394)
T PRK07940        212 RLA  214 (394)
T ss_pred             HHh
Confidence            443

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.69  E-value=4.3e-16  Score=167.74  Aligned_cols=204  Identities=18%  Similarity=0.191  Sum_probs=146.3

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      .+.+.+|++|+|++.+++.|..++..            .+.++++||+||+|||||++|+++|+.+++.           
T Consensus         9 KyRP~sf~dIiGQe~v~~~L~~ai~~------------~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C   76 (624)
T PRK14959          9 RYRPQTFAEVAGQETVKAILSRAAQE------------NRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTC   76 (624)
T ss_pred             HhCCCCHHHhcCCHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCccc
Confidence            45677899999999999999998873            2445789999999999999999999999764           


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHH----hcCCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.+++..-      ..-..++.+.+.+.    .....|+||||+|.+.              ...+
T Consensus        77 ~sC~~i~~g~hpDv~eId~a~~------~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt--------------~~a~  136 (624)
T PRK14959         77 EQCRKVTQGMHVDVVEIDGASN------RGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLT--------------REAF  136 (624)
T ss_pred             HHHHHHhcCCCCceEEEecccc------cCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCC--------------HHHH
Confidence                         333332110      01122333332222    2234599999999882              4567


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.|++.|+  ++.+.+++|++||.++.+.+.+++  |+. ++.|+.++.++...+++..+.+..+. ++..+..+++.+.
T Consensus       137 naLLk~LE--EP~~~~ifILaTt~~~kll~TI~S--Rcq-~i~F~pLs~~eL~~~L~~il~~egi~id~eal~lIA~~s~  211 (624)
T PRK14959        137 NALLKTLE--EPPARVTFVLATTEPHKFPVTIVS--RCQ-HFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAA  211 (624)
T ss_pred             HHHHHHhh--ccCCCEEEEEecCChhhhhHHHHh--hhh-ccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            89999998  466788999999999999888887  886 78999999999999998776655542 4455788888887


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      | +.+++.+++.++.  +.    ....|+.+++..++
T Consensus       212 G-dlR~Al~lLeqll--~~----g~~~It~d~V~~~l  241 (624)
T PRK14959        212 G-SVRDSMSLLGQVL--AL----GESRLTIDGARGVL  241 (624)
T ss_pred             C-CHHHHHHHHHHHH--Hh----cCCCcCHHHHHHHh
Confidence            7 5566666655432  11    23357777766665

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.69  E-value=5.1e-16  Score=166.46  Aligned_cols=204  Identities=15%  Similarity=0.206  Sum_probs=147.0

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      .+.+.+|++++|++.+++.|...+..            .+.++++||+||+|+|||++|+++|+.+++.           
T Consensus         9 KyRP~~f~diiGq~~~v~~L~~~i~~------------~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C   76 (546)
T PRK14957          9 KYRPQSFAEVAGQQHALNSLVHALET------------QKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKC   76 (546)
T ss_pred             HHCcCcHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCccc
Confidence            34567899999999999999988873            2455679999999999999999999988752           


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.+++..-    .  ....++.+.+.+..    ....|++|||+|.+              +....
T Consensus        77 ~sC~~i~~~~~~dlieidaas~----~--gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~l--------------s~~a~  136 (546)
T PRK14957         77 ENCVAINNNSFIDLIEIDAASR----T--GVEETKEILDNIQYMPSQGRYKVYLIDEVHML--------------SKQSF  136 (546)
T ss_pred             HHHHHHhcCCCCceEEeecccc----c--CHHHHHHHHHHHHhhhhcCCcEEEEEechhhc--------------cHHHH
Confidence                         222222110    1  12234455544432    23459999999987              24577


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.||+.|+  ++++.+.||++|+.+..+.+.+++  |+. .+.|..++.++....++..+++.++. ++..+..++..+.
T Consensus       137 naLLK~LE--epp~~v~fIL~Ttd~~kil~tI~S--Rc~-~~~f~~Ls~~eI~~~L~~il~~egi~~e~~Al~~Ia~~s~  211 (546)
T PRK14957        137 NALLKTLE--EPPEYVKFILATTDYHKIPVTILS--RCI-QLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAK  211 (546)
T ss_pred             HHHHHHHh--cCCCCceEEEEECChhhhhhhHHH--hee-eEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            89999998  577788888888889989888887  885 99999999999988888776665544 3445788888887


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      | +.+++.+.+..+..+.-      ..++.+++...+
T Consensus       212 G-dlR~alnlLek~i~~~~------~~It~~~V~~~l  241 (546)
T PRK14957        212 G-SLRDALSLLDQAISFCG------GELKQAQIKQML  241 (546)
T ss_pred             C-CHHHHHHHHHHHHHhcc------CCCCHHHHHHHH
Confidence            7 77777777776654321      235555555444

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.69  E-value=4.6e-16  Score=168.37  Aligned_cols=189  Identities=17%  Similarity=0.171  Sum_probs=140.9

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc------------
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS------------  351 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------------  351 (611)
                      +.+.+|++|+|++.+++.|..++..            .+.++.+||+||+|||||++|+++|+.++|.            
T Consensus         7 yRP~~f~eivGq~~i~~~L~~~i~~------------~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~   74 (584)
T PRK14952          7 YRPATFAEVVGQEHVTEPLSSALDA------------GRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCE   74 (584)
T ss_pred             hCCCcHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccH
Confidence            4567899999999999999999873            2456778999999999999999999998753            


Q ss_pred             --------------EEeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHH
Q 007255          352 --------------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERL  413 (611)
Q Consensus       352 --------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~  413 (611)
                                    ++.++++..      ..-..++.+.+.+..    ....|++|||+|.+-              ...
T Consensus        75 ~C~~i~~~~~~~~dvieidaas~------~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt--------------~~A  134 (584)
T PRK14952         75 SCVALAPNGPGSIDVVELDAASH------GGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVT--------------TAG  134 (584)
T ss_pred             HHHHhhcccCCCceEEEeccccc------cCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCC--------------HHH
Confidence                          222222111      112334444444322    223499999999882              447


Q ss_pred             HHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhC
Q 007255          414 LSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEET  492 (611)
Q Consensus       414 ~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~  492 (611)
                      .+.||+.|+  ++++.++||++|+.++.+.+++++  |+. .+.|..++.++..+.++..+++.++. ++..+..++..+
T Consensus       135 ~NALLK~LE--Epp~~~~fIL~tte~~kll~TI~S--Rc~-~~~F~~l~~~~i~~~L~~i~~~egi~i~~~al~~Ia~~s  209 (584)
T PRK14952        135 FNALLKIVE--EPPEHLIFIFATTEPEKVLPTIRS--RTH-HYPFRLLPPRTMRALIARICEQEGVVVDDAVYPLVIRAG  209 (584)
T ss_pred             HHHHHHHHh--cCCCCeEEEEEeCChHhhHHHHHH--hce-EEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Confidence            899999999  677899999999999999999988  875 89999999999998888777665543 334567777777


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q 007255          493 ELFTGAELEGLCREAGIV  510 (611)
Q Consensus       493 ~g~s~~~i~~~~~~a~~~  510 (611)
                      .| +.+++.+++.....+
T Consensus       210 ~G-dlR~aln~Ldql~~~  226 (584)
T PRK14952        210 GG-SPRDTLSVLDQLLAG  226 (584)
T ss_pred             CC-CHHHHHHHHHHHHhc
Confidence            76 777777777765443

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.69  E-value=1.3e-15  Score=164.59  Aligned_cols=190  Identities=18%  Similarity=0.223  Sum_probs=139.0

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc-------------
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------------   80 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-------------   80 (611)
                      +.+.|++|+|++.+++.|..++..            -+.+..+||+||+|||||++++.+|+.+++.             
T Consensus        11 RPqtFdEVIGQe~Vv~~L~~aL~~------------gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~s   78 (830)
T PRK07003         11 RPKDFASLVGQEHVVRALTHALDG------------GRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRA   78 (830)
T ss_pred             CCCcHHHHcCcHHHHHHHHHHHhc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHH
Confidence            337889999999999999998743            1234677999999999999999999998753             


Q ss_pred             -----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHH
Q 007255           81 -----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (611)
Q Consensus        81 -----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~  149 (611)
                                 +++++..+      ......++.+.+.+......++..|+||||+|.|..          ...+.|++.
T Consensus        79 Cr~I~~G~h~DviEIDAas------~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~----------~A~NALLKt  142 (830)
T PRK07003         79 CREIDEGRFVDYVEMDAAS------NRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTN----------HAFNAMLKT  142 (830)
T ss_pred             HHHHhcCCCceEEEecccc------cccHHHHHHHHHHHHhccccCCceEEEEeChhhCCH----------HHHHHHHHH
Confidence                       22222211      112234566666555444445667999999998843          457889999


Q ss_pred             HhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCC
Q 007255          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGY  228 (611)
Q Consensus       150 l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~  228 (611)
                      |++.      ..++.||.+||.++.|.+.+++  || ..+.|..++.++..++++..+...++.. +..+..++..++|-
T Consensus       143 LEEP------P~~v~FILaTtd~~KIp~TIrS--RC-q~f~Fk~Ls~eeIv~~L~~Il~~EgI~id~eAL~lIA~~A~Gs  213 (830)
T PRK07003        143 LEEP------PPHVKFILATTDPQKIPVTVLS--RC-LQFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQGS  213 (830)
T ss_pred             HHhc------CCCeEEEEEECChhhccchhhh--he-EEEecCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Confidence            9873      3368899999999999999999  98 4899999999999999998887655442 33477788888775


Q ss_pred             ccccHHHHHHHHH
Q 007255          229 VGADLEALCREAT  241 (611)
Q Consensus       229 ~~~dl~~l~~~a~  241 (611)
                      . ++..+++..+.
T Consensus       214 m-RdALsLLdQAi  225 (830)
T PRK07003        214 M-RDALSLTDQAI  225 (830)
T ss_pred             H-HHHHHHHHHHH
Confidence            3 44445555444

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.68  E-value=8.6e-16  Score=164.62  Aligned_cols=187  Identities=20%  Similarity=0.251  Sum_probs=140.4

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc------------
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS------------  351 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------------  351 (611)
                      +.+.+|++|+|++.+++.|..++..            ...++.+||+||||||||++|+++|+.+.+.            
T Consensus         8 yRP~~~~dvvGq~~v~~~L~~~i~~------------~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~s   75 (504)
T PRK14963          8 ARPITFDEVVGQEHVKEVLLAALRQ------------GRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECES   75 (504)
T ss_pred             hCCCCHHHhcChHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChh
Confidence            4567899999999999999998874            2445678999999999999999999998642            


Q ss_pred             -----------EEeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHH
Q 007255          352 -----------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLST  416 (611)
Q Consensus       352 -----------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~  416 (611)
                                 ++.+++++      ......++.+...+..    ..+.|++|||+|.+              ....++.
T Consensus        76 c~~i~~~~h~dv~el~~~~------~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~l--------------s~~a~na  135 (504)
T PRK14963         76 CLAVRRGAHPDVLEIDAAS------NNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMM--------------SKSAFNA  135 (504)
T ss_pred             hHHHhcCCCCceEEecccc------cCCHHHHHHHHHHHhhccccCCCeEEEEECcccc--------------CHHHHHH
Confidence                       33444321      1123345555444432    24569999999866              2456788


Q ss_pred             HHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCC
Q 007255          417 LLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELF  495 (611)
Q Consensus       417 ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~  495 (611)
                      |++.|+  ++...+++|++|+.++.+.+.+.+  |+. .+.|+.|+.++....++..+.+.++. ++..+..+++.+.| 
T Consensus       136 LLk~LE--ep~~~t~~Il~t~~~~kl~~~I~S--Rc~-~~~f~~ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s~G-  209 (504)
T PRK14963        136 LLKTLE--EPPEHVIFILATTEPEKMPPTILS--RTQ-HFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADG-  209 (504)
T ss_pred             HHHHHH--hCCCCEEEEEEcCChhhCChHHhc--ceE-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-
Confidence            999998  456678888899999999999988  887 89999999999999998777655544 34557889998887 


Q ss_pred             CHHHHHHHHHHHH
Q 007255          496 TGAELEGLCREAG  508 (611)
Q Consensus       496 s~~~i~~~~~~a~  508 (611)
                      +.+++.+.++...
T Consensus       210 dlR~aln~Lekl~  222 (504)
T PRK14963        210 AMRDAESLLERLL  222 (504)
T ss_pred             CHHHHHHHHHHHH
Confidence            6677777666654

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.68  E-value=6e-16  Score=168.54  Aligned_cols=189  Identities=22%  Similarity=0.288  Sum_probs=145.2

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc------------
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS------------  351 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------------  351 (611)
                      +.+.+|++++|++.+.+.|+..+..            .+.++.+||+||+|||||++|+.+|..++|.            
T Consensus        10 ~rP~~f~~viGq~~v~~~L~~~i~~------------~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~   77 (559)
T PRK05563         10 WRPQTFEDVVGQEHITKTLKNAIKQ------------GKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECE   77 (559)
T ss_pred             hCCCcHHhccCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccH
Confidence            4567899999999999999999873            2456789999999999999999999998653            


Q ss_pred             ------------EEeecchhhccccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHHH
Q 007255          352 ------------FFSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLLS  415 (611)
Q Consensus       352 ------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~  415 (611)
                                  ++.++++.      +.....++.+...+...    ...|++|||+|.+.              ....+
T Consensus        78 ~C~~i~~g~~~dv~eidaas------~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt--------------~~a~n  137 (559)
T PRK05563         78 ICKAITNGSLMDVIEIDAAS------NNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLS--------------TGAFN  137 (559)
T ss_pred             HHHHHhcCCCCCeEEeeccc------cCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCC--------------HHHHH
Confidence                        23333211      12344566776665532    23599999999882              34678


Q ss_pred             HHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCC
Q 007255          416 TLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETEL  494 (611)
Q Consensus       416 ~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g  494 (611)
                      .|++.|+  +++..+++|++|+.|+.+.+.+++  |+. .+.|+.|+.++....++..+++.++. ++..+..++..+.|
T Consensus       138 aLLKtLE--epp~~~ifIlatt~~~ki~~tI~S--Rc~-~~~f~~~~~~ei~~~L~~i~~~egi~i~~~al~~ia~~s~G  212 (559)
T PRK05563        138 ALLKTLE--EPPAHVIFILATTEPHKIPATILS--RCQ-RFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEG  212 (559)
T ss_pred             HHHHHhc--CCCCCeEEEEEeCChhhCcHHHHh--Hhe-EEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Confidence            9999998  577788999999999999999988  887 78899999999999998777665544 33557888888887


Q ss_pred             CCHHHHHHHHHHHHHH
Q 007255          495 FTGAELEGLCREAGIV  510 (611)
Q Consensus       495 ~s~~~i~~~~~~a~~~  510 (611)
                       +.+++.+.+..+..+
T Consensus       213 -~~R~al~~Ldq~~~~  227 (559)
T PRK05563        213 -GMRDALSILDQAISF  227 (559)
T ss_pred             -CHHHHHHHHHHHHHh
Confidence             788888877766544

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.68  E-value=7.9e-16  Score=164.30  Aligned_cols=189  Identities=17%  Similarity=0.222  Sum_probs=138.7

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc--------------
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--------------   80 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~--------------   80 (611)
                      .+.|++|+|++.+++.|.+++..            -+.+..+||+||+|||||++++.+|+.+++.              
T Consensus        12 PqtFddVIGQe~vv~~L~~al~~------------gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG   79 (700)
T PRK12323         12 PRDFTTLVGQEHVVRALTHALEQ------------QRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCG   79 (700)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHHh------------CCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCc
Confidence            37889999999999999998854            1244678999999999999999999999762              


Q ss_pred             ---------------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHH
Q 007255           81 ---------------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQ  145 (611)
Q Consensus        81 ---------------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~  145 (611)
                                     ++.+++.+      ......++++.+........++..|+||||+|.|..          ...+.
T Consensus        80 ~C~sC~~I~aG~hpDviEIdAas------~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~----------~AaNA  143 (700)
T PRK12323         80 QCRACTEIDAGRFVDYIEMDAAS------NRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTN----------HAFNA  143 (700)
T ss_pred             ccHHHHHHHcCCCCcceEecccc------cCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCH----------HHHHH
Confidence                           11222110      112344666666655444456678999999998854          55788


Q ss_pred             HHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcc-cHHHHHHh
Q 007255          146 LFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATS  224 (611)
Q Consensus       146 ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~-~~~~la~~  224 (611)
                      |++.|++      .+.+++||.+||.++.|.+.+++  ||. .+.|..++.++..+.++..+...++..+. .+..++..
T Consensus       144 LLKTLEE------PP~~v~FILaTtep~kLlpTIrS--RCq-~f~f~~ls~eei~~~L~~Il~~Egi~~d~eAL~~IA~~  214 (700)
T PRK12323        144 MLKTLEE------PPEHVKFILATTDPQKIPVTVLS--RCL-QFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQA  214 (700)
T ss_pred             HHHhhcc------CCCCceEEEEeCChHhhhhHHHH--HHH-hcccCCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            9999887      33467889999999999999999  884 89999999999999999887655544332 36777777


Q ss_pred             ccCCccccHHHHHHHHH
Q 007255          225 CNGYVGADLEALCREAT  241 (611)
Q Consensus       225 ~~g~~~~dl~~l~~~a~  241 (611)
                      ++|- .++..++++.+.
T Consensus       215 A~Gs-~RdALsLLdQai  230 (700)
T PRK12323        215 AQGS-MRDALSLTDQAI  230 (700)
T ss_pred             cCCC-HHHHHHHHHHHH
Confidence            7764 445555555443

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.68  E-value=6.1e-16  Score=173.62  Aligned_cols=188  Identities=18%  Similarity=0.148  Sum_probs=138.8

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      ++...+|++|+|++.+++.|..++..            .+.++.+||+||+|||||++|+++|+.++|.           
T Consensus         8 KyRP~~f~eiiGqe~v~~~L~~~i~~------------~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C   75 (824)
T PRK07764          8 RYRPATFAEVIGQEHVTEPLSTALDS------------GRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGEC   75 (824)
T ss_pred             HhCCCCHHHhcCcHHHHHHHHHHHHh------------CCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCccc
Confidence            34567899999999999999998873            2455779999999999999999999999763           


Q ss_pred             ---------------EEeecchhhccccccchHHHHHHHHHHHH----hcCCcEEEEcccccccccCCCCCCCCcchhHH
Q 007255          352 ---------------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGER  412 (611)
Q Consensus       352 ---------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~  412 (611)
                                     ++.++..+.      ..-..++.+.+.+.    .....|+||||+|.|              +..
T Consensus        76 ~sC~~~~~g~~~~~dv~eidaas~------~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~l--------------t~~  135 (824)
T PRK07764         76 DSCVALAPGGPGSLDVTEIDAASH------GGVDDARELRERAFFAPAESRYKIFIIDEAHMV--------------TPQ  135 (824)
T ss_pred             HHHHHHHcCCCCCCcEEEeccccc------CCHHHHHHHHHHHHhchhcCCceEEEEechhhc--------------CHH
Confidence                           122222110      01223444433322    234459999999988              246


Q ss_pred             HHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHh
Q 007255          413 LLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEE  491 (611)
Q Consensus       413 ~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~  491 (611)
                      ..|.||+.|+  ++...++||++|+.++.|.+.+++  |+. ++.|..++.++...+++..+++.++. ++..+..++..
T Consensus       136 a~NaLLK~LE--EpP~~~~fIl~tt~~~kLl~TIrS--Rc~-~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~  210 (824)
T PRK07764        136 GFNALLKIVE--EPPEHLKFIFATTEPDKVIGTIRS--RTH-HYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRA  210 (824)
T ss_pred             HHHHHHHHHh--CCCCCeEEEEEeCChhhhhHHHHh--hee-EEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            7899999998  577889999999999998888887  886 88999999999999998777655554 33446777777


Q ss_pred             CCCCCHHHHHHHHHHHH
Q 007255          492 TELFTGAELEGLCREAG  508 (611)
Q Consensus       492 ~~g~s~~~i~~~~~~a~  508 (611)
                      +.| +.+++.+.+.+..
T Consensus       211 sgG-dlR~Al~eLEKLi  226 (824)
T PRK07764        211 GGG-SVRDSLSVLDQLL  226 (824)
T ss_pred             cCC-CHHHHHHHHHHHH
Confidence            776 6777777666554

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.68  E-value=5.7e-16  Score=167.54  Aligned_cols=190  Identities=17%  Similarity=0.213  Sum_probs=142.7

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF----------  352 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~----------  352 (611)
                      .+.+.+|++++|++.+++.|..++..            .+.++++||+||||+|||++|+++|..+++..          
T Consensus         9 k~rP~~f~divGq~~v~~~L~~~i~~------------~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C   76 (527)
T PRK14969          9 KWRPKSFSELVGQEHVVRALTNALEQ------------QRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVC   76 (527)
T ss_pred             HhCCCcHHHhcCcHHHHHHHHHHHHc------------CCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCC
Confidence            34567899999999999999998873            24557789999999999999999999997631          


Q ss_pred             --------------EeecchhhccccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          353 --------------FSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       353 --------------~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                    +.++++.      ......++.+...+...    ...|++|||+|.+.              ....
T Consensus        77 ~~C~~i~~~~~~d~~ei~~~~------~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls--------------~~a~  136 (527)
T PRK14969         77 SACLEIDSGRFVDLIEVDAAS------NTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLS--------------KSAF  136 (527)
T ss_pred             HHHHHHhcCCCCceeEeeccc------cCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCC--------------HHHH
Confidence                          1122110      11234566666665422    23599999999872              4567


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.||+.|+  ++++.+.+|++|+.++.+.+.+++  |+. .+.|+.++.++....+...+.+.++. ++..+..+++.+.
T Consensus       137 naLLK~LE--epp~~~~fIL~t~d~~kil~tI~S--Rc~-~~~f~~l~~~~i~~~L~~il~~egi~~~~~al~~la~~s~  211 (527)
T PRK14969        137 NAMLKTLE--EPPEHVKFILATTDPQKIPVTVLS--RCL-QFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLARAAA  211 (527)
T ss_pred             HHHHHHHh--CCCCCEEEEEEeCChhhCchhHHH--HHH-HHhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            89999998  577888999999999988888877  885 89999999999998888766554444 3345788888888


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIV  510 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~  510 (611)
                      | +.+++.+++..+..+
T Consensus       212 G-slr~al~lldqai~~  227 (527)
T PRK14969        212 G-SMRDALSLLDQAIAY  227 (527)
T ss_pred             C-CHHHHHHHHHHHHHh
Confidence            7 778888888766544

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=99.68  E-value=1.3e-15  Score=161.10  Aligned_cols=164  Identities=24%  Similarity=0.335  Sum_probs=129.9

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc-------
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-------  362 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~-------  362 (611)
                      .+-.|++.+|+.+.+++..-...       +-....-++|+||||+|||+|++.+|..+|..|+.++.+-+.+       
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~-------~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGH  395 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLT-------KKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGH  395 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHh-------ccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccc
Confidence            35579999999999998741111       1112234789999999999999999999999999998865544       


Q ss_pred             --ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-------------CC
Q 007255          363 --MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-------------QA  427 (611)
Q Consensus       363 --~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-------------~~  427 (611)
                        -|+|.-.+.+-+-++.+...+| ++++||||.+...-      .+++    .++||.-||.-.             .-
T Consensus       396 RRTYIGamPGrIiQ~mkka~~~NP-v~LLDEIDKm~ss~------rGDP----aSALLEVLDPEQN~~F~DhYLev~yDL  464 (782)
T COG0466         396 RRTYIGAMPGKIIQGMKKAGVKNP-VFLLDEIDKMGSSF------RGDP----ASALLEVLDPEQNNTFSDHYLEVPYDL  464 (782)
T ss_pred             cccccccCChHHHHHHHHhCCcCC-eEEeechhhccCCC------CCCh----HHHHHhhcCHhhcCchhhccccCccch
Confidence              3999998888888999999999 99999999995331      1222    266776666311             12


Q ss_pred             CCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHh
Q 007255          428 KGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHT  474 (611)
Q Consensus       428 ~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~  474 (611)
                      .+|+||+|+|..+.|+.+|+.  |++ +|.++-++.++..+|-+.|+
T Consensus       465 S~VmFiaTANsl~tIP~PLlD--RME-iI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         465 SKVMFIATANSLDTIPAPLLD--RME-VIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             hheEEEeecCccccCChHHhc--cee-eeeecCCChHHHHHHHHHhc
Confidence            369999999999999999999  998 99999999999999999765

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.68  E-value=6.5e-16  Score=165.53  Aligned_cols=189  Identities=19%  Similarity=0.233  Sum_probs=141.8

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      .+.+.+|++++|++.+++.|..++..            .+.++++||+||+|+|||++|+++|+.+.|.           
T Consensus         9 KyRP~~F~dIIGQe~iv~~L~~aI~~------------~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C   76 (605)
T PRK05896          9 KYRPHNFKQIIGQELIKKILVNAILN------------NKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSC   76 (605)
T ss_pred             HhCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCccc
Confidence            34577899999999999999988763            2456789999999999999999999998642           


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.++++..      ..-..++.+.+.+...    ...|++|||+|.+-              ....
T Consensus        77 ~sCr~i~~~~h~DiieIdaas~------igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt--------------~~A~  136 (605)
T PRK05896         77 SVCESINTNQSVDIVELDAASN------NGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLS--------------TSAW  136 (605)
T ss_pred             HHHHHHHcCCCCceEEeccccc------cCHHHHHHHHHHHHhchhhCCcEEEEEechHhCC--------------HHHH
Confidence                         222322110      1223456665554432    23499999999872              3456


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.|++.|+  ++++.+++|++|+.++.+.+++++  |+. .+.|+.|+.++....++..+.+.+.. ++..+..++..+.
T Consensus       137 NaLLKtLE--EPp~~tvfIL~Tt~~~KLl~TI~S--Rcq-~ieF~~Ls~~eL~~~L~~il~kegi~Is~eal~~La~lS~  211 (605)
T PRK05896        137 NALLKTLE--EPPKHVVFIFATTEFQKIPLTIIS--RCQ-RYNFKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADLAD  211 (605)
T ss_pred             HHHHHHHH--hCCCcEEEEEECCChHhhhHHHHh--hhh-hcccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            89999998  577788999999999999999988  887 89999999999999988776655432 3455788888888


Q ss_pred             CCCHHHHHHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGI  509 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~  509 (611)
                      | +.+++.+.+..+..
T Consensus       212 G-dlR~AlnlLekL~~  226 (605)
T PRK05896        212 G-SLRDGLSILDQLST  226 (605)
T ss_pred             C-cHHHHHHHHHHHHh
Confidence            7 67777777776443

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.68  E-value=8e-16  Score=168.02  Aligned_cols=194  Identities=18%  Similarity=0.226  Sum_probs=144.5

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee---cc--
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL---SG--  357 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~---~~--  357 (611)
                      .+.+.+|++|+|++.+++.|...+..            .+.++++||+||+|+|||++|+++|..+.|.-...   .+  
T Consensus        11 KyRP~~f~dIiGQe~~v~~L~~aI~~------------~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~   78 (725)
T PRK07133         11 KYRPKTFDDIVGQDHIVQTLKNIIKS------------NKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQE   78 (725)
T ss_pred             HhCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhH
Confidence            34677899999999999999998873            24567899999999999999999999987642100   00  


Q ss_pred             --------hhhcccccc---chHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhc
Q 007255          358 --------AELYSMYVG---ESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (611)
Q Consensus       358 --------~~~~~~~~g---~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~  422 (611)
                              .++.. ..+   .+...++.+.+.+...    ...|++|||+|.+.              ....+.||+.|+
T Consensus        79 C~~~~~~~~Dvie-idaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT--------------~~A~NALLKtLE  143 (725)
T PRK07133         79 CIENVNNSLDIIE-MDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLS--------------KSAFNALLKTLE  143 (725)
T ss_pred             HHHhhcCCCcEEE-EeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCC--------------HHHHHHHHHHhh
Confidence                    01100 001   1234467777666532    33599999999872              346789999998


Q ss_pred             CCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCC-cccHHHHHHhCCCCCHHHHH
Q 007255          423 GLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGD-DVDLRSIAEETELFTGAELE  501 (611)
Q Consensus       423 ~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~-~~~~~~la~~~~g~s~~~i~  501 (611)
                        ++++.+++|++|+.++.+.+.+++  |+. .+.|.+|+.++....++..+.+.++.. +..+..+|..+.| +.+++.
T Consensus       144 --EPP~~tifILaTte~~KLl~TI~S--Rcq-~ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS~G-slR~Al  217 (725)
T PRK07133        144 --EPPKHVIFILATTEVHKIPLTILS--RVQ-RFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSG-SLRDAL  217 (725)
T ss_pred             --cCCCceEEEEEcCChhhhhHHHHh--hce-eEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHH
Confidence              577889999999999999999988  887 899999999999999987766555443 3347888888887 677777


Q ss_pred             HHHHHHHH
Q 007255          502 GLCREAGI  509 (611)
Q Consensus       502 ~~~~~a~~  509 (611)
                      .++..+..
T Consensus       218 slLekl~~  225 (725)
T PRK07133        218 SIAEQVSI  225 (725)
T ss_pred             HHHHHHHH
Confidence            77776543

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=99.67  E-value=2.8e-16  Score=165.28  Aligned_cols=196  Identities=20%  Similarity=0.237  Sum_probs=153.5

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEE---------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF---------  353 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~---------  353 (611)
                      .+.+..|++++|++.+.+.|...+..            -+..+++||.||.|||||++|+.+|..++|.--         
T Consensus         9 KyRP~~F~evvGQe~v~~~L~nal~~------------~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C   76 (515)
T COG2812           9 KYRPKTFDDVVGQEHVVKTLSNALEN------------GRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKC   76 (515)
T ss_pred             HhCcccHHHhcccHHHHHHHHHHHHh------------CcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhh
Confidence            34567899999999999999999884            356689999999999999999999999977631         


Q ss_pred             ----eecchhhcc--ccc---cchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHH
Q 007255          354 ----SLSGAELYS--MYV---GESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTE  420 (611)
Q Consensus       354 ----~~~~~~~~~--~~~---g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~  420 (611)
                          .++.+.+.+  .+.   ..+-..++.+.+.+.-    ....|.+|||+|.+              +...+|+||+.
T Consensus        77 ~~Ck~I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHML--------------S~~afNALLKT  142 (515)
T COG2812          77 ISCKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHML--------------SKQAFNALLKT  142 (515)
T ss_pred             hhhHhhhcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhh--------------hHHHHHHHhcc
Confidence                111111110  000   1123346666665542    23359999999988              36789999999


Q ss_pred             hcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcc-cHHHHHHhCCCCCHHH
Q 007255          421 MDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDV-DLRSIAEETELFTGAE  499 (611)
Q Consensus       421 l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~-~~~~la~~~~g~s~~~  499 (611)
                      |+  +++..|.||++|+.|+.+++.+++  |++ .+.|...+.++....+...+.+..+..+. .+..+|+..+| |.+|
T Consensus       143 LE--EPP~hV~FIlATTe~~Kip~TIlS--Rcq-~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~G-s~RD  216 (515)
T COG2812         143 LE--EPPSHVKFILATTEPQKIPNTILS--RCQ-RFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEG-SLRD  216 (515)
T ss_pred             cc--cCccCeEEEEecCCcCcCchhhhh--ccc-cccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHHHHHcCC-Chhh
Confidence            99  799999999999999999999998  888 88899999999999999888887777554 47889999998 8899


Q ss_pred             HHHHHHHHHHH
Q 007255          500 LEGLCREAGIV  510 (611)
Q Consensus       500 i~~~~~~a~~~  510 (611)
                      ...++..+...
T Consensus       217 alslLDq~i~~  227 (515)
T COG2812         217 ALSLLDQAIAF  227 (515)
T ss_pred             HHHHHHHHHHc
Confidence            98888877665

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.67  E-value=2.5e-15  Score=161.17  Aligned_cols=229  Identities=21%  Similarity=0.305  Sum_probs=153.3

Q ss_pred             CCccccccc-ch--hHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeec
Q 007255          285 PKVTWEDIG-GL--RDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLS  356 (611)
Q Consensus       285 ~~~~~~~i~-g~--~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~  356 (611)
                      +..+|++.+ |.  ..+...+.++...|          + ...++++||||||||||+|++++|+++     +..+++++
T Consensus       117 ~~~tfd~fv~g~~n~~a~~~~~~~~~~~----------~-~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~  185 (450)
T PRK00149        117 PKYTFDNFVVGKSNRLAHAAALAVAENP----------G-KAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVT  185 (450)
T ss_pred             CCCcccccccCCCcHHHHHHHHHHHhCc----------C-ccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence            455777743 43  22444455544431          1 223569999999999999999999998     56688899


Q ss_pred             chhhccccccchHH-HHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEe
Q 007255          357 GAELYSMYVGESEA-LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAA  435 (611)
Q Consensus       357 ~~~~~~~~~g~~~~-~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~  435 (611)
                      +.++...+...... ....+.+..  ..+++|+|||+|.+.++.            .....|+..++.+...++.++|++
T Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~dlLiiDDi~~l~~~~------------~~~~~l~~~~n~l~~~~~~iiits  251 (450)
T PRK00149        186 SEKFTNDFVNALRNNTMEEFKEKY--RSVDVLLIDDIQFLAGKE------------RTQEEFFHTFNALHEAGKQIVLTS  251 (450)
T ss_pred             HHHHHHHHHHHHHcCcHHHHHHHH--hcCCEEEEehhhhhcCCH------------HHHHHHHHHHHHHHHCCCcEEEEC
Confidence            88876654433221 112222222  257799999999885431            122344444443334455677766


Q ss_pred             cCCCcc---cchhccCCCCcc--ceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHH
Q 007255          436 TNRPHA---IDAALMRPGRFD--LVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGI  509 (611)
Q Consensus       436 tn~~~~---ld~al~r~gRf~--~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~  509 (611)
                      +..|..   +++.+.+  ||.  ..+.++.|+.++|.+|++..+...+.. ++..++.+|....| +.+++..++.....
T Consensus       252 ~~~p~~l~~l~~~l~S--Rl~~gl~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~-~~R~l~~~l~~l~~  328 (450)
T PRK00149        252 DRPPKELPGLEERLRS--RFEWGLTVDIEPPDLETRIAILKKKAEEEGIDLPDEVLEFIAKNITS-NVRELEGALNRLIA  328 (450)
T ss_pred             CCCHHHHHHHHHHHHh--HhcCCeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHcCcCC-CHHHHHHHHHHHHH
Confidence            666665   6678887  886  589999999999999999877654433 44458899998887 88999999988776


Q ss_pred             HHHHhhcccccccHHHHHHHHhhc-C---CCCCHHHHHH
Q 007255          510 VALREDISATAVRNRHFQTVKDSL-K---PALTKEEIDS  544 (611)
Q Consensus       510 ~a~~~~~~~~~i~~~~~~~~l~~~-~---~~~~~~~~~~  544 (611)
                      .+...   .++++...+..++..+ .   ..++.++|..
T Consensus       329 ~~~~~---~~~it~~~~~~~l~~~~~~~~~~~~~~~i~~  364 (450)
T PRK00149        329 YASLT---GKPITLELAKEALKDLLAAQKKKITIENIQK  364 (450)
T ss_pred             HHHhh---CCCCCHHHHHHHHHHhhccCCCCCCHHHHHH
Confidence            66543   4678999988888765 2   2355665433

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.67  E-value=5e-16  Score=169.96  Aligned_cols=204  Identities=18%  Similarity=0.247  Sum_probs=150.2

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      .+.+.+|++|+|++++++.|...+..            .+.++.+|||||+|+|||++|+++|+.+++.           
T Consensus         9 k~RP~~f~~iiGq~~v~~~L~~~i~~------------~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c   76 (576)
T PRK14965          9 KYRPQTFSDLTGQEHVSRTLQNAIDT------------GRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVC   76 (576)
T ss_pred             HhCCCCHHHccCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCcc
Confidence            34567899999999999999998873            2456789999999999999999999998753           


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.+++.+      ......++.+.+.+...    ...|++|||+|.+.              ....
T Consensus        77 ~~c~~i~~g~~~d~~eid~~s------~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt--------------~~a~  136 (576)
T PRK14965         77 PPCVEITEGRSVDVFEIDGAS------NTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLS--------------TNAF  136 (576)
T ss_pred             HHHHHHhcCCCCCeeeeeccC------ccCHHHHHHHHHHHHhccccCCceEEEEEChhhCC--------------HHHH
Confidence                         22222211      11233466666655422    22499999999882              4567


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.|++.|+  ++++.++||++|+.++.+.+.+++  |+. .+.|..++.++....+...+++.++. ++..+..++..+.
T Consensus       137 naLLk~LE--epp~~~~fIl~t~~~~kl~~tI~S--Rc~-~~~f~~l~~~~i~~~L~~i~~~egi~i~~~al~~la~~a~  211 (576)
T PRK14965        137 NALLKTLE--EPPPHVKFIFATTEPHKVPITILS--RCQ-RFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGD  211 (576)
T ss_pred             HHHHHHHH--cCCCCeEEEEEeCChhhhhHHHHH--hhh-hhhcCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcC
Confidence            99999998  577889999999999999999988  886 88999999999888888776655543 3455788888888


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      | +-+++.+.+..+..+.-      ..++.+++...+
T Consensus       212 G-~lr~al~~Ldqliay~g------~~It~edV~~ll  241 (576)
T PRK14965        212 G-SMRDSLSTLDQVLAFCG------DAVGDDDVAELL  241 (576)
T ss_pred             C-CHHHHHHHHHHHHHhcc------CCCCHHHHHHHh
Confidence            7 66777777765544422      125666655543

>PLN03025 replication factor C subunit; Provisional

Probab=99.67  E-value=3.5e-15  Score=152.93  Aligned_cols=184  Identities=20%  Similarity=0.167  Sum_probs=130.4

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC-----cEEeecc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-----SFFSLSG  357 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~-----~~~~~~~  357 (611)
                      .+.+.++++++|++++.+.|+.++..           + . ..++|||||||||||++|+++|+++.+     .++.+++
T Consensus         6 kyrP~~l~~~~g~~~~~~~L~~~~~~-----------~-~-~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~   72 (319)
T PLN03025          6 KYRPTKLDDIVGNEDAVSRLQVIARD-----------G-N-MPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNA   72 (319)
T ss_pred             hcCCCCHHHhcCcHHHHHHHHHHHhc-----------C-C-CceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecc
Confidence            44567899999999999999887653           1 2 235999999999999999999999833     3566666


Q ss_pred             hhhccccccchHHHHHHHHHHHHh-------cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCe
Q 007255          358 AELYSMYVGESEALLRNTFQRARL-------AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGI  430 (611)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~a~~-------~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  430 (611)
                      ++..+      ...++...+....       ....|++|||+|.+.              ....+.|++.|+.  ..+.+
T Consensus        73 sd~~~------~~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt--------------~~aq~aL~~~lE~--~~~~t  130 (319)
T PLN03025         73 SDDRG------IDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMT--------------SGAQQALRRTMEI--YSNTT  130 (319)
T ss_pred             ccccc------HHHHHHHHHHHHhccccCCCCCeEEEEEechhhcC--------------HHHHHHHHHHHhc--ccCCc
Confidence            55422      1123333222111       235699999999883              3346778888873  34556


Q ss_pred             EEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHH
Q 007255          431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCR  505 (611)
Q Consensus       431 ~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~  505 (611)
                      .+|.+||.++.+.+++.+  |+. .+.|+.|+.++....++..+++.++. ++..+..++..+.| +.+.+.+.++
T Consensus       131 ~~il~~n~~~~i~~~L~S--Rc~-~i~f~~l~~~~l~~~L~~i~~~egi~i~~~~l~~i~~~~~g-DlR~aln~Lq  202 (319)
T PLN03025        131 RFALACNTSSKIIEPIQS--RCA-IVRFSRLSDQEILGRLMKVVEAEKVPYVPEGLEAIIFTADG-DMRQALNNLQ  202 (319)
T ss_pred             eEEEEeCCccccchhHHH--hhh-cccCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHH
Confidence            677789999999899988  875 89999999999999998776655443 34568888888776 4444444444

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.66  E-value=3.1e-15  Score=158.59  Aligned_cols=201  Identities=23%  Similarity=0.316  Sum_probs=142.3

Q ss_pred             CCCcccccccchhHHHHH---HHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhh
Q 007255          284 IPKVTWEDIGGLRDLKKK---LQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~---l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~  360 (611)
                      ..+.++++++|++++...   +.+.+..             ....+++|+||||||||++|+++|+..+..++.+++...
T Consensus         6 ~RP~~l~d~vGq~~~v~~~~~L~~~i~~-------------~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~   72 (413)
T PRK13342          6 MRPKTLDEVVGQEHLLGPGKPLRRMIEA-------------GRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTS   72 (413)
T ss_pred             hCCCCHHHhcCcHHHhCcchHHHHHHHc-------------CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccc
Confidence            345679999999998655   7777653             223579999999999999999999999999999887532


Q ss_pred             ccccccchHHHHHHHHHHHH----hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEec
Q 007255          361 YSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAAT  436 (611)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~t  436 (611)
                             ....++.+++.+.    .....||||||+|.+.              ....+.|+..++    .+.+++|++|
T Consensus        73 -------~~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~--------------~~~q~~LL~~le----~~~iilI~at  127 (413)
T PRK13342         73 -------GVKDLREVIEEARQRRSAGRRTILFIDEIHRFN--------------KAQQDALLPHVE----DGTITLIGAT  127 (413)
T ss_pred             -------cHHHHHHHHHHHHHhhhcCCceEEEEechhhhC--------------HHHHHHHHHHhh----cCcEEEEEeC
Confidence                   2233455555543    2356799999999872              334567777775    2567777776


Q ss_pred             CC--CcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCC--C--CCcccHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 007255          437 NR--PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMK--V--GDDVDLRSIAEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       437 n~--~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~--~--~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~  510 (611)
                      +.  ...+++++++  |+ ..+.|+.++.++...+++..+....  .  .++..+..+++.+.| +.+.+.+++..+...
T Consensus       128 t~n~~~~l~~aL~S--R~-~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~G-d~R~aln~Le~~~~~  203 (413)
T PRK13342        128 TENPSFEVNPALLS--RA-QVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANG-DARRALNLLELAALG  203 (413)
T ss_pred             CCChhhhccHHHhc--cc-eeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            43  4478999998  88 4889999999999999987654321  1  233446788888766 566666666655432


Q ss_pred             HHHhhcccccccHHHHHHHHhhc
Q 007255          511 ALREDISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       511 a~~~~~~~~~i~~~~~~~~l~~~  533 (611)
                             ...|+.+++..++...
T Consensus       204 -------~~~It~~~v~~~~~~~  219 (413)
T PRK13342        204 -------VDSITLELLEEALQKR  219 (413)
T ss_pred             -------cCCCCHHHHHHHHhhh
Confidence                   2457777777776543

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.66  E-value=1.7e-15  Score=164.50  Aligned_cols=218  Identities=20%  Similarity=0.267  Sum_probs=149.2

Q ss_pred             ccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------C
Q 007255          280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------E  349 (611)
Q Consensus       280 ~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~  349 (611)
                      +.....+.+|++++|++...+.+...+..             +.+.++||+||||||||++|++++.++          +
T Consensus        55 ~~~~~rp~~f~~iiGqs~~i~~l~~al~~-------------~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~  121 (531)
T TIGR02902        55 LSEKTRPKSFDEIIGQEEGIKALKAALCG-------------PNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEG  121 (531)
T ss_pred             HHHhhCcCCHHHeeCcHHHHHHHHHHHhC-------------CCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCC
Confidence            33345567899999999999888865432             234579999999999999999998753          3


Q ss_pred             CcEEeecchhhc--c-----ccccchHHHH---HHHH----------HHHHhcCCcEEEEcccccccccCCCCCCCCcch
Q 007255          350 ASFFSLSGAELY--S-----MYVGESEALL---RNTF----------QRARLAAPSIIFFDEADVVGAKRGGSSSTSITV  409 (611)
Q Consensus       350 ~~~~~~~~~~~~--~-----~~~g~~~~~~---~~~~----------~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~  409 (611)
                      .+|+.+++....  .     ...+.....+   ...|          ......+..+|||||+|.+.             
T Consensus       122 ~~fi~id~~~~~~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~-------------  188 (531)
T TIGR02902       122 AAFVEIDATTARFDERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELH-------------  188 (531)
T ss_pred             CCEEEEccccccCCccccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCC-------------
Confidence            678888875321  1     1011000000   0000          01112345699999999882             


Q ss_pred             hHHHHHHHHHHhcCCC---------------------------CCCCeEEEEecCCCcccchhccCCCCccceeecCCCC
Q 007255          410 GERLLSTLLTEMDGLE---------------------------QAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPD  462 (611)
Q Consensus       410 ~~~~~~~ll~~l~~~~---------------------------~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~  462 (611)
                       ...++.|++.|+.-.                           +.+-.++++||+.|+.+++++++  |+. .++|++++
T Consensus       189 -~~~q~~LL~~Le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrs--R~~-~I~f~pL~  264 (531)
T TIGR02902       189 -PVQMNKLLKVLEDRKVFLDSAYYNSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRS--RCV-EIFFRPLL  264 (531)
T ss_pred             -HHHHHHHHHHHHhCeeeeccccccccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhh--hhh-eeeCCCCC
Confidence             456677777664210                           11124455566789999999998  986 78899999


Q ss_pred             HHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHh
Q 007255          463 LEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKD  531 (611)
Q Consensus       463 ~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~  531 (611)
                      .+++..|++..+++..+. ++..++.++..+.  +++++.++++.|...+..+.  ...|+.+|+..++.
T Consensus       265 ~eei~~Il~~~a~k~~i~is~~al~~I~~y~~--n~Rel~nll~~Aa~~A~~~~--~~~It~~dI~~vl~  330 (531)
T TIGR02902       265 DEEIKEIAKNAAEKIGINLEKHALELIVKYAS--NGREAVNIVQLAAGIALGEG--RKRILAEDIEWVAE  330 (531)
T ss_pred             HHHHHHHHHHHHHHcCCCcCHHHHHHHHHhhh--hHHHHHHHHHHHHHHHhhCC--CcEEcHHHHHHHhC
Confidence            999999999888776544 3344666666554  78999999999988776543  45799999999985

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>TIGR00763 lon ATP-dependent protease La

Probab=99.66  E-value=1.8e-15  Score=172.06  Aligned_cols=168  Identities=27%  Similarity=0.395  Sum_probs=121.6

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc--------
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH--------   90 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~--------   90 (611)
                      +++.|++++++.+.+++......       +...+.+++|+||||||||++++++|+.++.+++.++.+...        
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~-------~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~  392 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLR-------GKMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGH  392 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhh-------cCCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCC
Confidence            35889999999999977543221       112335899999999999999999999999999999765432        


Q ss_pred             -cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCC---------CCCCCC
Q 007255           91 -KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK---------PSKTSV  160 (611)
Q Consensus        91 -~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~~~  160 (611)
                       ..+.|.....+...|..+..    ..| |++|||||.+.+...+      ...+.|+..+|...         ......
T Consensus       393 ~~~~~g~~~g~i~~~l~~~~~----~~~-villDEidk~~~~~~~------~~~~aLl~~ld~~~~~~f~d~~~~~~~d~  461 (775)
T TIGR00763       393 RRTYVGAMPGRIIQGLKKAKT----KNP-LFLLDEIDKIGSSFRG------DPASALLEVLDPEQNNAFSDHYLDVPFDL  461 (775)
T ss_pred             CCceeCCCCchHHHHHHHhCc----CCC-EEEEechhhcCCccCC------CHHHHHHHhcCHHhcCccccccCCceecc
Confidence             23445445555555655432    224 8999999999864321      12456677666311         111112


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhh
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYT  207 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~  207 (611)
                      .++++|+|||..+.+++++++  ||. .|.|+.|+.+++.+|++.++
T Consensus       462 s~v~~I~TtN~~~~i~~~L~~--R~~-vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       462 SKVIFIATANSIDTIPRPLLD--RME-VIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             CCEEEEEecCCchhCCHHHhC--Cee-EEecCCCCHHHHHHHHHHHH
Confidence            468999999999999999998  995 89999999999999998765

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.66  E-value=3.9e-15  Score=157.89  Aligned_cols=203  Identities=21%  Similarity=0.292  Sum_probs=140.2

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecchhhccccccchHH-HHHHHHHHHHhcCCcEEEEcccccccc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEA-LLRNTFQRARLAAPSIIFFDEADVVGA  397 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~a~~~~p~il~iDeid~l~~  397 (611)
                      .++++||||+|+|||+|++++++++     +..++++++.++...+...... .+..+.+..  ..+++|+|||+|.+.+
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~--~~~dlLiiDDi~~l~~  213 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALRNNKMEEFKEKY--RSVDLLLIDDIQFLAG  213 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHHcCCHHHHHHHH--HhCCEEEEehhhhhcC
Confidence            4568999999999999999999987     5778899988876544322111 112222222  2367999999998854


Q ss_pred             cCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc---cchhccCCCCcc--ceeecCCCCHHHHHHHHHH
Q 007255          398 KRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA---IDAALMRPGRFD--LVLYVPPPDLEARHEILRV  472 (611)
Q Consensus       398 ~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~---ld~al~r~gRf~--~~i~~~~p~~~~r~~il~~  472 (611)
                      +.            .....|+..++.+...++.++|+++..|..   +++.+.+  ||.  ..+.++.|+.++|..|++.
T Consensus       214 ~~------------~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~S--Rl~~g~~v~i~~pd~~~r~~il~~  279 (405)
T TIGR00362       214 KE------------RTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRS--RFEWGLVVDIEPPDLETRLAILQK  279 (405)
T ss_pred             CH------------HHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhh--hccCCeEEEeCCCCHHHHHHHHHH
Confidence            31            122344444443334455677766666765   4567776  886  5799999999999999998


Q ss_pred             HhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhc----CCCCCHHHHHHHH
Q 007255          473 HTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSL----KPALTKEEIDSYS  546 (611)
Q Consensus       473 ~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~----~~~~~~~~~~~~~  546 (611)
                      .++..+.. ++..++.+|+...+ +.++++.++......+...   .++++......++...    ++.++.+.|....
T Consensus       280 ~~~~~~~~l~~e~l~~ia~~~~~-~~r~l~~~l~~l~~~a~~~---~~~it~~~~~~~L~~~~~~~~~~it~~~I~~~V  354 (405)
T TIGR00362       280 KAEEEGLELPDEVLEFIAKNIRS-NVRELEGALNRLLAYASLT---GKPITLELAKEALKDLLRAKKKEITIENIQEVV  354 (405)
T ss_pred             HHHHcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHHh---CCCCCHHHHHHHHHHhccccCCCCCHHHHHHHH
Confidence            87665544 44557889988887 7899999999887766543   4678888888888654    2346666654433

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.66  E-value=4.5e-15  Score=157.87  Aligned_cols=178  Identities=19%  Similarity=0.279  Sum_probs=127.9

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc-------------
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------------   80 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-------------   80 (611)
                      +.+.|++++|++.+++.|...+...            +.+.++||+||||||||++|+.+|+.+++.             
T Consensus         9 RP~~~~divGq~~i~~~L~~~i~~~------------~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~   76 (472)
T PRK14962          9 RPKTFSEVVGQDHVKKLIINALKKN------------SISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRA   76 (472)
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHH
Confidence            3467899999999999888876431            245679999999999999999999998752             


Q ss_pred             -----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHH
Q 007255           81 -----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (611)
Q Consensus        81 -----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~  149 (611)
                                 ++.++++.      ......++.+.+.+...+..++..|++|||+|.+..          ..+..|+..
T Consensus        77 c~~i~~g~~~dv~el~aa~------~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~----------~a~~~LLk~  140 (472)
T PRK14962         77 CRSIDEGTFMDVIELDAAS------NRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTK----------EAFNALLKT  140 (472)
T ss_pred             HHHHhcCCCCccEEEeCcc------cCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhHH----------HHHHHHHHH
Confidence                       33333321      111234555555554444445677999999998843          446778888


Q ss_pred             HhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCC
Q 007255          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGY  228 (611)
Q Consensus       150 l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~  228 (611)
                      ++..      ++++++|++|+.+..+++++++  |+. .+.|.+++.++...+++..+...+..- +..+..++..+.|-
T Consensus       141 LE~p------~~~vv~Ilattn~~kl~~~L~S--R~~-vv~f~~l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s~Gd  211 (472)
T PRK14962        141 LEEP------PSHVVFVLATTNLEKVPPTIIS--RCQ-VIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGG  211 (472)
T ss_pred             HHhC------CCcEEEEEEeCChHhhhHHHhc--CcE-EEEECCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCC
Confidence            8752      2356777777777899999998  884 899999999999999998876544332 23477788776653

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.65  E-value=4.7e-15  Score=158.85  Aligned_cols=190  Identities=19%  Similarity=0.215  Sum_probs=139.0

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc-------------
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------------   80 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-------------   80 (611)
                      +.+.|++++|++.+++.|..++..            -+.+..+||+||+|||||++|+.+|+.+++.             
T Consensus        10 RPktFddVIGQe~vv~~L~~aI~~------------grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~s   77 (702)
T PRK14960         10 RPRNFNELVGQNHVSRALSSALER------------GRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCAT   77 (702)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHH
Confidence            346789999999999999998753            1345788999999999999999999998762             


Q ss_pred             -----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHH
Q 007255           81 -----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (611)
Q Consensus        81 -----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~  149 (611)
                                 ++.+++++      ......++.+...+...+..++..|+||||+|.|..          ...+.|+..
T Consensus        78 C~~I~~g~hpDviEIDAAs------~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~----------~A~NALLKt  141 (702)
T PRK14960         78 CKAVNEGRFIDLIEIDAAS------RTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLST----------HSFNALLKT  141 (702)
T ss_pred             HHHHhcCCCCceEEecccc------cCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCH----------HHHHHHHHH
Confidence                       22233221      112344566665554444445678999999998854          457788999


Q ss_pred             HhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCC
Q 007255          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGY  228 (611)
Q Consensus       150 l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~  228 (611)
                      ++..      +.++.+|.+|+.+..+.+.+++  |+. .+.|.+++.++..+.++..+...+...+ ..+..++..++| 
T Consensus       142 LEEP------P~~v~FILaTtd~~kIp~TIlS--RCq-~feFkpLs~eEI~k~L~~Il~kEgI~id~eAL~~IA~~S~G-  211 (702)
T PRK14960        142 LEEP------PEHVKFLFATTDPQKLPITVIS--RCL-QFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQG-  211 (702)
T ss_pred             HhcC------CCCcEEEEEECChHhhhHHHHH--hhh-eeeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-
Confidence            8863      2356778888888889999988  884 8999999999999999988876655433 347777777765 


Q ss_pred             ccccHHHHHHHHH
Q 007255          229 VGADLEALCREAT  241 (611)
Q Consensus       229 ~~~dl~~l~~~a~  241 (611)
                      +.+++.+++..++
T Consensus       212 dLRdALnLLDQaI  224 (702)
T PRK14960        212 SLRDALSLTDQAI  224 (702)
T ss_pred             CHHHHHHHHHHHH
Confidence            4566666666554

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.65  E-value=3.2e-15  Score=159.39  Aligned_cols=191  Identities=17%  Similarity=0.192  Sum_probs=143.6

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      .+.+.+|++++|++.+++.|...+..            .+.++.+|||||+|+|||++|+++|+.+.+.           
T Consensus         7 KyRP~~fdeiiGqe~v~~~L~~~I~~------------grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C   74 (535)
T PRK08451          7 KYRPKHFDELIGQESVSKTLSLALDN------------NRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTC   74 (535)
T ss_pred             HHCCCCHHHccCcHHHHHHHHHHHHc------------CCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCccc
Confidence            34567899999999999999998863            2456778999999999999999999998432           


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.+++++-      ..-..++.+.......    ...|++|||+|.+              +....
T Consensus        75 ~~C~~~~~~~h~dv~eldaas~------~gId~IRelie~~~~~P~~~~~KVvIIDEad~L--------------t~~A~  134 (535)
T PRK08451         75 IQCQSALENRHIDIIEMDAASN------RGIDDIRELIEQTKYKPSMARFKIFIIDEVHML--------------TKEAF  134 (535)
T ss_pred             HHHHHHhhcCCCeEEEeccccc------cCHHHHHHHHHHHhhCcccCCeEEEEEECcccC--------------CHHHH
Confidence                         222222110      0123455555443321    1249999999987              35678


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.||+.|+  ++++.+.||++|+.+..+.+++++  |+. .++|.+++.++....++..++..++. ++..+..++..+.
T Consensus       135 NALLK~LE--Epp~~t~FIL~ttd~~kL~~tI~S--Rc~-~~~F~~Ls~~ei~~~L~~Il~~EGi~i~~~Al~~Ia~~s~  209 (535)
T PRK08451        135 NALLKTLE--EPPSYVKFILATTDPLKLPATILS--RTQ-HFRFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGN  209 (535)
T ss_pred             HHHHHHHh--hcCCceEEEEEECChhhCchHHHh--hce-eEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            99999998  467778888889999999999998  876 89999999999888888776655443 3456788999888


Q ss_pred             CCCHHHHHHHHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIVA  511 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~a  511 (611)
                      | +.+++.+.+..+..++
T Consensus       210 G-dlR~alnlLdqai~~~  226 (535)
T PRK08451        210 G-SLRDTLTLLDQAIIYC  226 (535)
T ss_pred             C-cHHHHHHHHHHHHHhc
Confidence            8 8888888888776654

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.65  E-value=2.5e-15  Score=160.55  Aligned_cols=196  Identities=17%  Similarity=0.209  Sum_probs=140.1

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEe--------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS--------  354 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~--------  354 (611)
                      .+.+.+|++++|++.+.+.|...+..            ...++++|||||+|+|||++|+++|..+++.--.        
T Consensus         9 kyRP~~f~diiGq~~i~~~L~~~i~~------------~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c   76 (486)
T PRK14953          9 KYRPKFFKEVIGQEIVVRILKNAVKL------------QRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKC   76 (486)
T ss_pred             hhCCCcHHHccChHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCcc
Confidence            34567899999999999999998873            2456778999999999999999999998752100        


Q ss_pred             ecc--------hhhcc--ccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHH
Q 007255          355 LSG--------AELYS--MYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTE  420 (611)
Q Consensus       355 ~~~--------~~~~~--~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~  420 (611)
                      .++        .++..  ......-..++.+.+.+..    ....|++|||+|.+.              ....+.|++.
T Consensus        77 ~nc~~i~~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt--------------~~a~naLLk~  142 (486)
T PRK14953         77 ENCVEIDKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLT--------------KEAFNALLKT  142 (486)
T ss_pred             HHHHHHhcCCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcC--------------HHHHHHHHHH
Confidence            000        01100  0000112335555555442    234599999999772              3456889999


Q ss_pred             hcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHH
Q 007255          421 MDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAE  499 (611)
Q Consensus       421 l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~  499 (611)
                      |+  +++..+++|++|+.++.+.+++.+  |+. .+.|++|+.++....++..++..++. ++..+..++..+.| +.++
T Consensus       143 LE--epp~~~v~Il~tt~~~kl~~tI~S--Rc~-~i~f~~ls~~el~~~L~~i~k~egi~id~~al~~La~~s~G-~lr~  216 (486)
T PRK14953        143 LE--EPPPRTIFILCTTEYDKIPPTILS--RCQ-RFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEG-GMRD  216 (486)
T ss_pred             Hh--cCCCCeEEEEEECCHHHHHHHHHH--hce-EEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHH
Confidence            98  466677888888888889888887  886 79999999999999999877766554 33457888888877 6777


Q ss_pred             HHHHHHHHHHH
Q 007255          500 LEGLCREAGIV  510 (611)
Q Consensus       500 i~~~~~~a~~~  510 (611)
                      +.+.+..+...
T Consensus       217 al~~Ldkl~~~  227 (486)
T PRK14953        217 AASLLDQASTY  227 (486)
T ss_pred             HHHHHHHHHHh
Confidence            77777766543

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=99.65  E-value=1.7e-14  Score=136.58  Aligned_cols=206  Identities=23%  Similarity=0.294  Sum_probs=149.2

Q ss_pred             cccccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CC
Q 007255            3 SKGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GA   79 (611)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~   79 (611)
                      +.+.+.+.......++++++|.+.+++.|.+.....+.        | .+.+|+||+|+.|||||++++++..++   |.
T Consensus        11 ~~~~l~~i~~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~--------G-~pannvLL~G~rGtGKSSlVkall~~y~~~GL   81 (249)
T PF05673_consen   11 NSGYLEPIKHPDPIRLDDLIGIERQKEALIENTEQFLQ--------G-LPANNVLLWGARGTGKSSLVKALLNEYADQGL   81 (249)
T ss_pred             CCCcEEecCCCCCCCHHHhcCHHHHHHHHHHHHHHHHc--------C-CCCcceEEecCCCCCHHHHHHHHHHHHhhcCc
Confidence            35667788888888999999999999999887755433        2 366899999999999999999999877   56


Q ss_pred             cEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCC
Q 007255           80 HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS  159 (611)
Q Consensus        80 ~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  159 (611)
                      .++.|...++..         +..+++.....   ..+-|||+||+-  +...+       .-...|..+|++.-..  .
T Consensus        82 RlIev~k~~L~~---------l~~l~~~l~~~---~~kFIlf~DDLs--Fe~~d-------~~yk~LKs~LeGgle~--~  138 (249)
T PF05673_consen   82 RLIEVSKEDLGD---------LPELLDLLRDR---PYKFILFCDDLS--FEEGD-------TEYKALKSVLEGGLEA--R  138 (249)
T ss_pred             eEEEECHHHhcc---------HHHHHHHHhcC---CCCEEEEecCCC--CCCCc-------HHHHHHHHHhcCcccc--C
Confidence            788888766643         34455544432   247899999973  32221       2346677778775433  4


Q ss_pred             CCcEEEEEeecCccccc---------------------HHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-cc
Q 007255          160 VPHVVVVASTNRVDAID---------------------PALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VD  217 (611)
Q Consensus       160 ~~~v~ii~ttn~~~~l~---------------------~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~  217 (611)
                      +.+|++.+|+|+.+.++                     +.+.-..||...+.|.+|+.++..+|+++++...++..+ ..
T Consensus       139 P~NvliyATSNRRHLv~E~~~d~~~~~~~eih~~d~~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~~~g~~~~~e~  218 (249)
T PF05673_consen  139 PDNVLIYATSNRRHLVPESFSDREDIQDDEIHPSDTIEEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYAERYGLELDEEE  218 (249)
T ss_pred             CCcEEEEEecchhhccchhhhhccCCCccccCcchHHHHHHhHHHhCCcEEEecCCCHHHHHHHHHHHHHHcCCCCCHHH
Confidence            56899999999854222                     222223499999999999999999999999987776654 23


Q ss_pred             H----HHHHHhccCCccccHHHHHHHH
Q 007255          218 L----EAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       218 ~----~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      +    ...+..-.|.||+...++++..
T Consensus       219 l~~~Al~wa~~rg~RSGRtA~QF~~~l  245 (249)
T PF05673_consen  219 LRQEALQWALRRGGRSGRTARQFIDDL  245 (249)
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            3    3334445778999888877653

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.64  E-value=4.2e-15  Score=157.99  Aligned_cols=203  Identities=18%  Similarity=0.197  Sum_probs=143.6

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc------------
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS------------  351 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------------  351 (611)
                      +.+.+|++|+|++.+++.|...+..            .+.++++|||||||+|||++|+++|+.+.+.            
T Consensus        11 yRP~~~~diiGq~~~v~~L~~~i~~------------~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c   78 (451)
T PRK06305         11 YRPQTFSEILGQDAVVAVLKNALRF------------NRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQC   78 (451)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc------------CCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCccc
Confidence            4567999999999999999998873            2456789999999999999999999998653            


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHH----hcCCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.+++..    ..  +-..++.+.+.+.    .....|++|||+|.+.              ....
T Consensus        79 ~~C~~i~~~~~~d~~~i~g~~----~~--gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt--------------~~~~  138 (451)
T PRK06305         79 ASCKEISSGTSLDVLEIDGAS----HR--GIEDIRQINETVLFTPSKSRYKIYIIDEVHMLT--------------KEAF  138 (451)
T ss_pred             HHHHHHhcCCCCceEEeeccc----cC--CHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhC--------------HHHH
Confidence                         22222111    01  1123333333222    2345699999999872              3457


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.|++.|+  ++++.+++|++|+.++.+.+++.+  |+. .+.|+.++.++....++..+++.++. ++..+..++..+.
T Consensus       139 n~LLk~lE--ep~~~~~~Il~t~~~~kl~~tI~s--Rc~-~v~f~~l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~s~  213 (451)
T PRK06305        139 NSLLKTLE--EPPQHVKFFLATTEIHKIPGTILS--RCQ-KMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARAAQ  213 (451)
T ss_pred             HHHHHHhh--cCCCCceEEEEeCChHhcchHHHH--hce-EEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            88999998  466788888899999999999988  887 79999999999998888776655543 4456788888887


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      | +.+.+.+.+.....+.      ...|+.+++..++
T Consensus       214 g-dlr~a~~~Lekl~~~~------~~~It~~~V~~l~  243 (451)
T PRK06305        214 G-SLRDAESLYDYVVGLF------PKSLDPDSVAKAL  243 (451)
T ss_pred             C-CHHHHHHHHHHHHHhc------cCCcCHHHHHHHH
Confidence            6 5566666555443321      1236666665554

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.64  E-value=7.6e-15  Score=161.74  Aligned_cols=194  Identities=20%  Similarity=0.204  Sum_probs=135.7

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEE-E----Ecc---c
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT-V----ISP---H   87 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~-~----v~~---~   87 (611)
                      ..|++|+|++.+++.|+.++..            -+.+..+||+||+|||||++++.+|+.+++... .    -.|   .
T Consensus        13 ~tFddIIGQe~Iv~~LknaI~~------------~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~   80 (944)
T PRK14949         13 ATFEQMVGQSHVLHALTNALTQ------------QRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCV   80 (944)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHh------------CCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHH
Confidence            6789999999999999988753            123456799999999999999999999976411 0    000   0


Q ss_pred             c--------cc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC
Q 007255           88 S--------VH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK  157 (611)
Q Consensus        88 ~--------~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  157 (611)
                      .        +.  +.........++.+.+........++..|+||||+|.|..          ..++.|++.|+.     
T Consensus        81 ~i~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~----------eAqNALLKtLEE-----  145 (944)
T PRK14949         81 EIAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSR----------SSFNALLKTLEE-----  145 (944)
T ss_pred             HHhcCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCH----------HHHHHHHHHHhc-----
Confidence            0        00  0000012234555555554444445667999999999843          678899999997     


Q ss_pred             CCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCccccHHHH
Q 007255          158 TSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEAL  236 (611)
Q Consensus       158 ~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~~dl~~l  236 (611)
                       ++.++.+|++|+.+..+.+.+++  |+ ..+.|.+++.++...+++..+....+..+ ..+..++..++|. .|++.++
T Consensus       146 -PP~~vrFILaTTe~~kLl~TIlS--RC-q~f~fkpLs~eEI~~~L~~il~~EgI~~edeAL~lIA~~S~Gd-~R~ALnL  220 (944)
T PRK14949        146 -PPEHVKFLLATTDPQKLPVTVLS--RC-LQFNLKSLTQDEIGTQLNHILTQEQLPFEAEALTLLAKAANGS-MRDALSL  220 (944)
T ss_pred             -cCCCeEEEEECCCchhchHHHHH--hh-eEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHH
Confidence             33467788888888899999998  88 58999999999999999988765443322 2467777777664 4455555


Q ss_pred             HHHHH
Q 007255          237 CREAT  241 (611)
Q Consensus       237 ~~~a~  241 (611)
                      +..+.
T Consensus       221 LdQal  225 (944)
T PRK14949        221 TDQAI  225 (944)
T ss_pred             HHHHH
Confidence            55444

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.64  E-value=7.9e-15  Score=152.41  Aligned_cols=190  Identities=22%  Similarity=0.323  Sum_probs=134.3

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcE---------------
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL---------------   81 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~---------------   81 (611)
                      .|++|+|++.+++.|..++..+..   .....+.+.+..+||+||||+|||++|+.+|+.+.+.-               
T Consensus         3 ~f~~IiGq~~~~~~L~~~i~~~~~---~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~   79 (394)
T PRK07940          3 VWDDLVGQEAVVAELRAAARAARA---DVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTV   79 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhccc---cccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHH
Confidence            468999999999999999876422   12223344667899999999999999999999876531               


Q ss_pred             --------EEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcC
Q 007255           82 --------TVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN  153 (611)
Q Consensus        82 --------~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~  153 (611)
                              ..+.+..     .......++.+++.+...+..++..|+||||+|.|.+          ..++.|++.+++.
T Consensus        80 ~~~~hpD~~~i~~~~-----~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~----------~aanaLLk~LEep  144 (394)
T PRK07940         80 LAGTHPDVRVVAPEG-----LSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTE----------RAANALLKAVEEP  144 (394)
T ss_pred             hcCCCCCEEEecccc-----ccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCH----------HHHHHHHHHhhcC
Confidence                    1111110     1122345777887776665556678999999999854          4567899998863


Q ss_pred             CCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccH
Q 007255          154 KPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADL  233 (611)
Q Consensus       154 ~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl  233 (611)
                            +.++++|.+|+.++.+.|.++|  |+ ..+.|++|+.++..+++....   ... ......++..++|..+..+
T Consensus       145 ------~~~~~fIL~a~~~~~llpTIrS--Rc-~~i~f~~~~~~~i~~~L~~~~---~~~-~~~a~~la~~s~G~~~~A~  211 (394)
T PRK07940        145 ------PPRTVWLLCAPSPEDVLPTIRS--RC-RHVALRTPSVEAVAEVLVRRD---GVD-PETARRAARASQGHIGRAR  211 (394)
T ss_pred             ------CCCCeEEEEECChHHChHHHHh--hC-eEEECCCCCHHHHHHHHHHhc---CCC-HHHHHHHHHHcCCCHHHHH
Confidence                  2234555556668999999999  88 489999999999888876322   222 2346678888888877665


Q ss_pred             HHHH
Q 007255          234 EALC  237 (611)
Q Consensus       234 ~~l~  237 (611)
                      .-+.
T Consensus       212 ~l~~  215 (394)
T PRK07940        212 RLAT  215 (394)
T ss_pred             HHhc
Confidence            4443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.64  E-value=3.4e-15  Score=161.93  Aligned_cols=194  Identities=18%  Similarity=0.182  Sum_probs=141.4

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEe--------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS--------  354 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~--------  354 (611)
                      .+.+.+|++|+|++.+++.|+..+..            ...++++|||||+|+|||++|+++|+.+++.--.        
T Consensus         9 kyRP~~f~diiGqe~iv~~L~~~i~~------------~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C   76 (563)
T PRK06647          9 KRRPRDFNSLEGQDFVVETLKHSIES------------NKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGEC   76 (563)
T ss_pred             HhCCCCHHHccCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccc
Confidence            34577899999999999999998873            2456789999999999999999999998763100        


Q ss_pred             ecc--------hhhccccccc---hHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHH
Q 007255          355 LSG--------AELYSMYVGE---SEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLT  419 (611)
Q Consensus       355 ~~~--------~~~~~~~~g~---~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~  419 (611)
                      .++        .++. .+.|.   .-..++.+...+..    ....|++|||+|.+              +....+.|++
T Consensus        77 ~~C~~i~~~~~~dv~-~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~L--------------s~~a~naLLK  141 (563)
T PRK06647         77 SSCKSIDNDNSLDVI-EIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHML--------------SNSAFNALLK  141 (563)
T ss_pred             hHHHHHHcCCCCCeE-EecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhc--------------CHHHHHHHHH
Confidence            000        0100 01111   12344454443332    23459999999987              2456789999


Q ss_pred             HhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHH
Q 007255          420 EMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGA  498 (611)
Q Consensus       420 ~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~  498 (611)
                      .|+  ++++.+++|++|+.++.+.+++.+  |+. .+.|.+++.++..+.++..+...++. ++..+..+++.+.| +.+
T Consensus       142 ~LE--epp~~~vfI~~tte~~kL~~tI~S--Rc~-~~~f~~l~~~el~~~L~~i~~~egi~id~eAl~lLa~~s~G-dlR  215 (563)
T PRK06647        142 TIE--EPPPYIVFIFATTEVHKLPATIKS--RCQ-HFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTG-SVR  215 (563)
T ss_pred             hhc--cCCCCEEEEEecCChHHhHHHHHH--hce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHH
Confidence            998  577889999999999999999988  887 78999999999999998776555543 34557888888887 778


Q ss_pred             HHHHHHHHHHH
Q 007255          499 ELEGLCREAGI  509 (611)
Q Consensus       499 ~i~~~~~~a~~  509 (611)
                      ++.+.+..+..
T Consensus       216 ~alslLdklis  226 (563)
T PRK06647        216 DAYTLFDQVVS  226 (563)
T ss_pred             HHHHHHHHHHh
Confidence            88877776543

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=99.64  E-value=1.3e-14  Score=153.69  Aligned_cols=167  Identities=26%  Similarity=0.352  Sum_probs=125.4

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc--------
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK--------   91 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~--------   91 (611)
                      +=.|++++|+++.+.+.-....       .--...-++|+||||+|||++++++|+.++..|+.++...+.+        
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~-------~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHR  396 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLT-------KKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHR  396 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHh-------ccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhcccc
Confidence            4479999999999987542221       1223467899999999999999999999999999999875542        


Q ss_pred             -ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhc---------CCCCCCCCC
Q 007255           92 -AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS---------NKPSKTSVP  161 (611)
Q Consensus        92 -~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~---------~~~~~~~~~  161 (611)
                       .|.|.....+-+-...+...    .| ++++||||.|..+..+  +.    .++|+..+|-         +-...-...
T Consensus       397 RTYIGamPGrIiQ~mkka~~~----NP-v~LLDEIDKm~ss~rG--DP----aSALLEVLDPEQN~~F~DhYLev~yDLS  465 (782)
T COG0466         397 RTYIGAMPGKIIQGMKKAGVK----NP-VFLLDEIDKMGSSFRG--DP----ASALLEVLDPEQNNTFSDHYLEVPYDLS  465 (782)
T ss_pred             ccccccCChHHHHHHHHhCCc----CC-eEEeechhhccCCCCC--Ch----HHHHHhhcCHhhcCchhhccccCccchh
Confidence             35566555555555555433    35 8889999999875432  22    3566666653         222222346


Q ss_pred             cEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhh
Q 007255          162 HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYT  207 (611)
Q Consensus       162 ~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~  207 (611)
                      +|+||+|.|..+.++.+|+.  |+. .|.++-++.+|..+|.+.++
T Consensus       466 ~VmFiaTANsl~tIP~PLlD--RME-iI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         466 KVMFIATANSLDTIPAPLLD--RME-VIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             heEEEeecCccccCChHHhc--cee-eeeecCCChHHHHHHHHHhc
Confidence            89999999999999999998  985 89999999999999999876

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.64  E-value=9e-15  Score=159.11  Aligned_cols=188  Identities=18%  Similarity=0.255  Sum_probs=137.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---------------   80 (611)
                      +.|++|+|++.+++.|...+..            -+.+..+||+||+|+|||++++.+|+.+++.               
T Consensus        13 ~~f~divGQe~vv~~L~~~l~~------------~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~   80 (647)
T PRK07994         13 QTFAEVVGQEHVLTALANALDL------------GRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCR   80 (647)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHH
Confidence            6889999999999999888754            1234567999999999999999999999763               


Q ss_pred             ---------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh
Q 007255           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (611)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~  151 (611)
                               ++.+++.+      ......++.+.+.+......++..|+||||+|.|..          ..++.|++.++
T Consensus        81 ~i~~g~~~D~ieidaas------~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~----------~a~NALLKtLE  144 (647)
T PRK07994         81 EIEQGRFVDLIEIDAAS------RTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSR----------HSFNALLKTLE  144 (647)
T ss_pred             HHHcCCCCCceeecccc------cCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCH----------HHHHHHHHHHH
Confidence                     12222211      112344566665555444455677999999998854          56889999999


Q ss_pred             cCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCcc
Q 007255          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVG  230 (611)
Q Consensus       152 ~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~  230 (611)
                      +      +++++.||.+|+.+..+.+.+++  |+ ..+.|.+++.++....++..+...++..+ ..+..++..++|.. 
T Consensus       145 E------Pp~~v~FIL~Tt~~~kLl~TI~S--RC-~~~~f~~Ls~~ei~~~L~~il~~e~i~~e~~aL~~Ia~~s~Gs~-  214 (647)
T PRK07994        145 E------PPEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRQQLEHILQAEQIPFEPRALQLLARAADGSM-  214 (647)
T ss_pred             c------CCCCeEEEEecCCccccchHHHh--hh-eEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCH-
Confidence            7      34467888888889999999999  87 58999999999999999988765444332 34677777777654 


Q ss_pred             ccHHHHHHHHH
Q 007255          231 ADLEALCREAT  241 (611)
Q Consensus       231 ~dl~~l~~~a~  241 (611)
                      ++..++++.+.
T Consensus       215 R~Al~lldqai  225 (647)
T PRK07994        215 RDALSLTDQAI  225 (647)
T ss_pred             HHHHHHHHHHH
Confidence            44445555443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.63  E-value=3.6e-15  Score=155.97  Aligned_cols=204  Identities=19%  Similarity=0.268  Sum_probs=147.6

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------  351 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------  351 (611)
                      ...+.+|++++|++.+++.+.+.+..            ...++++|||||||+|||++|+++|..+.+.           
T Consensus         7 ~~rp~~~~~iig~~~~~~~l~~~~~~------------~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c   74 (355)
T TIGR02397         7 KYRPQTFEDVIGQEHIVQTLKNAIKN------------GRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNEC   74 (355)
T ss_pred             HhCCCcHhhccCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCC
Confidence            44678899999999999999988763            2445789999999999999999999998543           


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.+++..      ......++.++..+...    ...|++|||+|.+.              ....
T Consensus        75 ~~c~~~~~~~~~~~~~~~~~~------~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~--------------~~~~  134 (355)
T TIGR02397        75 ESCKEINSGSSLDVIEIDAAS------NNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLS--------------KSAF  134 (355)
T ss_pred             HHHHHHhcCCCCCEEEeeccc------cCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcC--------------HHHH
Confidence                         22222210      11233466676665432    23499999998772              3456


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.|++.++  ++++.+++|++|+.++.+.+++.+  |+. .+.|++|+.++..++++..+++.+.. ++..+..++..+.
T Consensus       135 ~~Ll~~le--~~~~~~~lIl~~~~~~~l~~~l~s--r~~-~~~~~~~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~  209 (355)
T TIGR02397       135 NALLKTLE--EPPEHVVFILATTEPHKIPATILS--RCQ-RFDFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAAD  209 (355)
T ss_pred             HHHHHHHh--CCccceeEEEEeCCHHHHHHHHHh--hee-EEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            88999997  356678888889999988889888  885 78999999999999999877665543 3355777888887


Q ss_pred             CCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      | +.+.+.+.+..+..+.      ...++.+++..++
T Consensus       210 g-~~~~a~~~lekl~~~~------~~~it~~~v~~~~  239 (355)
T TIGR02397       210 G-SLRDALSLLDQLISFG------NGNITYEDVNELL  239 (355)
T ss_pred             C-ChHHHHHHHHHHHhhc------CCCCCHHHHHHHh
Confidence            6 6777777776665542      1236666665544

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.63  E-value=8.5e-15  Score=157.38  Aligned_cols=189  Identities=18%  Similarity=0.211  Sum_probs=139.0

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc--------------
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--------------   80 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~--------------   80 (611)
                      .+.|++|+|++.+++.|..++..            -+.+..+||+||+|||||++|+.+|+.+++.              
T Consensus        12 P~~f~divGq~~v~~~L~~~~~~------------~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C   79 (509)
T PRK14958         12 PRCFQEVIGQAPVVRALSNALDQ------------QYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENC   79 (509)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHh------------CCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHH
Confidence            36789999999999999998854            1244568999999999999999999999753              


Q ss_pred             ----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHH
Q 007255           81 ----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (611)
Q Consensus        81 ----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l  150 (611)
                                ++.+++.+      ......++.+.+.+...+..++..|++|||+|.|..          ...+.|+..+
T Consensus        80 ~~i~~g~~~d~~eidaas------~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~----------~a~naLLk~L  143 (509)
T PRK14958         80 REIDEGRFPDLFEVDAAS------RTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSG----------HSFNALLKTL  143 (509)
T ss_pred             HHHhcCCCceEEEEcccc------cCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCH----------HHHHHHHHHH
Confidence                      23333221      122334566666555444455677999999998854          4578899999


Q ss_pred             hcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCc
Q 007255          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYV  229 (611)
Q Consensus       151 ~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~  229 (611)
                      +..      +.++.+|.+|+.++.+.+.+++  |+. .++|..++.++....++..+...+... +..+..++..++| +
T Consensus       144 Eep------p~~~~fIlattd~~kl~~tI~S--Rc~-~~~f~~l~~~~i~~~l~~il~~egi~~~~~al~~ia~~s~G-s  213 (509)
T PRK14958        144 EEP------PSHVKFILATTDHHKLPVTVLS--RCL-QFHLAQLPPLQIAAHCQHLLKEENVEFENAALDLLARAANG-S  213 (509)
T ss_pred             hcc------CCCeEEEEEECChHhchHHHHH--Hhh-hhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-c
Confidence            873      3457778888888899989998  874 789999999999998888887665442 2346777777765 4


Q ss_pred             cccHHHHHHHHH
Q 007255          230 GADLEALCREAT  241 (611)
Q Consensus       230 ~~dl~~l~~~a~  241 (611)
                      .+++.++++.+.
T Consensus       214 lR~al~lLdq~i  225 (509)
T PRK14958        214 VRDALSLLDQSI  225 (509)
T ss_pred             HHHHHHHHHHHH
Confidence            666777776654

>PRK04195 replication factor C large subunit; Provisional

Probab=99.63  E-value=7.7e-15  Score=158.58  Aligned_cols=191  Identities=22%  Similarity=0.279  Sum_probs=137.5

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      .+.+.++++++|++.+++.|..++.....        | .+++++||+||||||||++|+++|++++.+++.+++++...
T Consensus         7 KyrP~~l~dlvg~~~~~~~l~~~l~~~~~--------g-~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~   77 (482)
T PRK04195          7 KYRPKTLSDVVGNEKAKEQLREWIESWLK--------G-KPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRT   77 (482)
T ss_pred             hcCCCCHHHhcCCHHHHHHHHHHHHHHhc--------C-CCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEccccccc
Confidence            45567899999999999999998864221        2 34678999999999999999999999999999999877532


Q ss_pred             ccccchHHHHHHHHHHHHh------cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEec
Q 007255          363 MYVGESEALLRNTFQRARL------AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAAT  436 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~------~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~t  436 (611)
                            ...+..+...+..      ..+.||+|||+|.+.+..          .....++|+..++.    .+..+|++|
T Consensus        78 ------~~~i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~~~----------d~~~~~aL~~~l~~----~~~~iIli~  137 (482)
T PRK04195         78 ------ADVIERVAGEAATSGSLFGARRKLILLDEVDGIHGNE----------DRGGARAILELIKK----AKQPIILTA  137 (482)
T ss_pred             ------HHHHHHHHHHhhccCcccCCCCeEEEEecCccccccc----------chhHHHHHHHHHHc----CCCCEEEec
Confidence                  1223333333322      246799999999985421          12345677777752    234566788


Q ss_pred             CCCcccch-hccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHH
Q 007255          437 NRPHAIDA-ALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGI  509 (611)
Q Consensus       437 n~~~~ld~-al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~  509 (611)
                      |.++.+++ .+.+  |+ ..|.|+.|+..++..+++..+...++. ++..+..+++.+.|    |++.+++....
T Consensus       138 n~~~~~~~k~Lrs--r~-~~I~f~~~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~G----DlR~ain~Lq~  205 (482)
T PRK04195        138 NDPYDPSLRELRN--AC-LMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGG----DLRSAINDLQA  205 (482)
T ss_pred             cCccccchhhHhc--cc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC----CHHHHHHHHHH
Confidence            99988877 5554  44 489999999999999999777655543 34557888887665    67776665544

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=99.63  E-value=5.4e-15  Score=141.79  Aligned_cols=178  Identities=21%  Similarity=0.298  Sum_probs=129.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc------EEEEccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH------LTVISPHSV   89 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~------~~~v~~~~~   89 (611)
                      +.+++++|++.+++.|...+..             +.-.++|||||||||||+.++++|++++.+      +...++++.
T Consensus        33 kt~de~~gQe~vV~~L~~a~~~-------------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSde   99 (346)
T KOG0989|consen   33 KTFDELAGQEHVVQVLKNALLR-------------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDE   99 (346)
T ss_pred             CcHHhhcchHHHHHHHHHHHhh-------------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccc
Confidence            8899999999999999988743             234699999999999999999999999762      233344443


Q ss_pred             ccccccchHHHHHHHHHHHHhhh-----hcCCC-eEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           90 HKAHVGESEKALREAFSQASSHA-----LSGKP-SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        90 ~~~~~~~~~~~l~~~f~~~~~~~-----~~~~~-~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      .+...   .+.-.+.|.......     ..+.| -|++|||+|.|..          ..+.+|.+.|+....      ++
T Consensus       100 rGisv---vr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmts----------daq~aLrr~mE~~s~------~t  160 (346)
T KOG0989|consen  100 RGISV---VREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTS----------DAQAALRRTMEDFSR------TT  160 (346)
T ss_pred             ccccc---hhhhhcCHHHHhhccccccCCCCCcceEEEEechhhhhH----------HHHHHHHHHHhcccc------ce
Confidence            22211   111112233322211     11122 6999999999865          678999999998443      46


Q ss_pred             EEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCccc-HHHHHHhccCC
Q 007255          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGY  228 (611)
Q Consensus       164 ~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~-~~~la~~~~g~  228 (611)
                      .||..||..+.+.+.+.+  |+. .+.|+....+.....++..+.+..++.+.+ ++.++..++|-
T Consensus       161 rFiLIcnylsrii~pi~S--RC~-KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S~Gd  223 (346)
T KOG0989|consen  161 RFILICNYLSRIIRPLVS--RCQ-KFRFKKLKDEDIVDRLEKIASKEGVDIDDDALKLIAKISDGD  223 (346)
T ss_pred             EEEEEcCChhhCChHHHh--hHH-HhcCCCcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCc
Confidence            888889999999999998  986 789999999999999998887776664433 77777766653

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.63  E-value=1.8e-14  Score=150.03  Aligned_cols=194  Identities=20%  Similarity=0.267  Sum_probs=132.4

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE--------ccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI--------SPH   87 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v--------~~~   87 (611)
                      ..|++|+|++.+++.|...+..            -+.+..+||+||+|+|||++|+.+|+.+++.....        +|.
T Consensus        13 ~~~~~iiGq~~~~~~l~~~~~~------------~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~   80 (363)
T PRK14961         13 QYFRDIIGQKHIVTAISNGLSL------------GRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICK   80 (363)
T ss_pred             CchhhccChHHHHHHHHHHHHc------------CCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHH
Confidence            6789999999999999888743            12456789999999999999999999986421000        000


Q ss_pred             --------cccc--ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC
Q 007255           88 --------SVHK--AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK  157 (611)
Q Consensus        88 --------~~~~--~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  157 (611)
                              ++..  .........++.+.+.....+..++..|++|||+|.+..          ..++.|+..++..    
T Consensus        81 ~~~~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~----------~a~naLLk~lEe~----  146 (363)
T PRK14961         81 EIEKGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSR----------HSFNALLKTLEEP----  146 (363)
T ss_pred             HHhcCCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCH----------HHHHHHHHHHhcC----
Confidence                    1110  000122344555555544333344567999999998843          4467788888863    


Q ss_pred             CCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHH
Q 007255          158 TSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEAL  236 (611)
Q Consensus       158 ~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l  236 (611)
                        +.++.+|.+|+.++.+.+.+++  |+ ..+.|++|+.++..+++...++..+.. .+..+..++..+.| +.+++.++
T Consensus       147 --~~~~~fIl~t~~~~~l~~tI~S--Rc-~~~~~~~l~~~el~~~L~~~~~~~g~~i~~~al~~ia~~s~G-~~R~al~~  220 (363)
T PRK14961        147 --PQHIKFILATTDVEKIPKTILS--RC-LQFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHG-SMRDALNL  220 (363)
T ss_pred             --CCCeEEEEEcCChHhhhHHHHh--hc-eEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHH
Confidence              2356677777888889999988  87 489999999999999999887765543 22346777777765 34555555


Q ss_pred             HHHHH
Q 007255          237 CREAT  241 (611)
Q Consensus       237 ~~~a~  241 (611)
                      ++.+.
T Consensus       221 l~~~~  225 (363)
T PRK14961        221 LEHAI  225 (363)
T ss_pred             HHHHH
Confidence            55543

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.62  E-value=8.9e-15  Score=160.47  Aligned_cols=192  Identities=17%  Similarity=0.214  Sum_probs=138.5

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee----cc-
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL----SG-  357 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~----~~-  357 (611)
                      .+.+.+|++++|++.+++.|...+..            .+.++++||+||+|+|||++|+++|+.+++....-    .+ 
T Consensus         9 kyRP~~f~~liGq~~i~~~L~~~l~~------------~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg   76 (620)
T PRK14948          9 KYRPQRFDELVGQEAIATTLKNALIS------------NRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCG   76 (620)
T ss_pred             HhCCCcHhhccChHHHHHHHHHHHHc------------CCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCc
Confidence            44567899999999999999998874            13456899999999999999999999997732100    00 


Q ss_pred             -------------hhhc--cccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHH
Q 007255          358 -------------AELY--SMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (611)
Q Consensus       358 -------------~~~~--~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll  418 (611)
                                   .++.  ....+.....++.+.+.+...    ...|++|||+|.+              .....+.||
T Consensus        77 ~C~~C~~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~L--------------t~~a~naLL  142 (620)
T PRK14948         77 KCELCRAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHML--------------STAAFNALL  142 (620)
T ss_pred             ccHHHHHHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECcccc--------------CHHHHHHHH
Confidence                         0110  111122345677777666532    2359999999987              245679999


Q ss_pred             HHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCH
Q 007255          419 TEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTG  497 (611)
Q Consensus       419 ~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~  497 (611)
                      +.|+  ++.+.++||++|+.++.+-+.+++  |+. .+.|+.++.++....+.....+.... .+..+..+++.+.| +.
T Consensus       143 K~LE--ePp~~tvfIL~t~~~~~llpTIrS--Rc~-~~~f~~l~~~ei~~~L~~ia~kegi~is~~al~~La~~s~G-~l  216 (620)
T PRK14948        143 KTLE--EPPPRVVFVLATTDPQRVLPTIIS--RCQ-RFDFRRIPLEAMVQHLSEIAEKESIEIEPEALTLVAQRSQG-GL  216 (620)
T ss_pred             HHHh--cCCcCeEEEEEeCChhhhhHHHHh--hee-EEEecCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCC-CH
Confidence            9999  577888999999999999889887  886 78898888888877777655544333 33457888888877 45


Q ss_pred             HHHHHHHHH
Q 007255          498 AELEGLCRE  506 (611)
Q Consensus       498 ~~i~~~~~~  506 (611)
                      +++.+.++.
T Consensus       217 r~A~~lLek  225 (620)
T PRK14948        217 RDAESLLDQ  225 (620)
T ss_pred             HHHHHHHHH
Confidence            666666554

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.62  E-value=2.4e-14  Score=152.09  Aligned_cols=191  Identities=17%  Similarity=0.238  Sum_probs=130.6

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecchhhccccccchH-HHHHHHHHHHHhcCCcEEEEcccccccc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESE-ALLRNTFQRARLAAPSIIFFDEADVVGA  397 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~a~~~~p~il~iDeid~l~~  397 (611)
                      .++++||||||+|||+|++++|+++     +..++++++.++...+..... ..+.. |.......+++|+|||++.+.+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~~~~~~~~~~~~-f~~~~~~~~dvLlIDDi~~l~~  208 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKLNE-FREKYRKKVDVLLIDDVQFLIG  208 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHhcccHHH-HHHHHHhcCCEEEEechhhhcC
Confidence            3569999999999999999999986     467888888887655432211 11222 2222223678999999998854


Q ss_pred             cCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc---cchhccCCCCcc--ceeecCCCCHHHHHHHHHH
Q 007255          398 KRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA---IDAALMRPGRFD--LVLYVPPPDLEARHEILRV  472 (611)
Q Consensus       398 ~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~---ld~al~r~gRf~--~~i~~~~p~~~~r~~il~~  472 (611)
                      +.            .....|+..++.+...++.++|+++..|..   +++.+.+  ||.  ..+.+++||.+.|..|++.
T Consensus       209 ~~------------~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~S--R~~~gl~v~i~~pd~e~r~~IL~~  274 (440)
T PRK14088        209 KT------------GVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVS--RFQMGLVAKLEPPDEETRKKIARK  274 (440)
T ss_pred             cH------------HHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhh--HHhcCceEeeCCCCHHHHHHHHHH
Confidence            31            112233333333334455666666677775   4556766  774  6888999999999999997


Q ss_pred             HhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhc
Q 007255          473 HTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       473 ~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~  533 (611)
                      .+...++. ++..++.+|....| +.++++.++......+...   .++++......++..+
T Consensus       275 ~~~~~~~~l~~ev~~~Ia~~~~~-~~R~L~g~l~~l~~~~~~~---~~~it~~~a~~~L~~~  332 (440)
T PRK14088        275 MLEIEHGELPEEVLNFVAENVDD-NLRRLRGAIIKLLVYKETT---GEEVDLKEAILLLKDF  332 (440)
T ss_pred             HHHhcCCCCCHHHHHHHHhcccc-CHHHHHHHHHHHHHHHHHh---CCCCCHHHHHHHHHHH
Confidence            76543333 33447889988877 7889999988776655443   4678888888888754

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.62  E-value=1.4e-14  Score=151.15  Aligned_cols=222  Identities=25%  Similarity=0.258  Sum_probs=143.0

Q ss_pred             ccchhHHHHHHHHHhhccCCChhHHhh---cCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc-ccccc
Q 007255          292 IGGLRDLKKKLQQAVEWPIKHSTAFSR---LGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVGE  367 (611)
Q Consensus       292 i~g~~~~k~~l~~~~~~~~~~~~~~~~---~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~-~~~g~  367 (611)
                      |+|++.+++.+..++..+.+......+   -.-.+..++||+||||||||++|+++|..++.+|+.++++.+.. .|+|.
T Consensus        73 ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~~gyvG~  152 (412)
T PRK05342         73 VIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVGE  152 (412)
T ss_pred             eeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhcccCCcccc
Confidence            899999999997766432222110000   00123568999999999999999999999999999999988764 68887


Q ss_pred             hHH-HHHHHHHH----HHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC----C-------CCCeE
Q 007255          368 SEA-LLRNTFQR----ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE----Q-------AKGIL  431 (611)
Q Consensus       368 ~~~-~~~~~~~~----a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~----~-------~~~~~  431 (611)
                      ... .+..++..    .....++||||||||.+..+....+...+.....+++.||+.||+..    +       ...++
T Consensus       153 d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~~gg~~~~~~~~~  232 (412)
T PRK05342        153 DVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQGGRKHPQQEFI  232 (412)
T ss_pred             hHHHHHHHHHHhccccHHHcCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEeCCCCCcCcCCCCeE
Confidence            543 34444432    22346789999999999876433222222223468899999998631    1       11244


Q ss_pred             EEEecCCCc--------------------------c--------------------------cchhccCCCCccceeecC
Q 007255          432 VLAATNRPH--------------------------A--------------------------IDAALMRPGRFDLVLYVP  459 (611)
Q Consensus       432 vI~~tn~~~--------------------------~--------------------------ld~al~r~gRf~~~i~~~  459 (611)
                      +|.|+|-..                          .                          +.|.|+  ||++.++.|.
T Consensus       233 ~i~t~nilfi~~Gaf~g~~~~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~dL~~~gf~PEfl--gRld~iv~f~  310 (412)
T PRK05342        233 QVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQVEPEDLIKFGLIPEFI--GRLPVVATLE  310 (412)
T ss_pred             EeccCCceeeecccccCcHHHHHHHHhhcccCCccccccccccchhHHHHHhcCHHHHHHHhhhHHHh--CCCCeeeecC
Confidence            555544300                          0                          123333  5999999999


Q ss_pred             CCCHHHHHHHHHH----HhcC---------CCCC-CcccHHHHHHh--CCCCCHHHHHHHHHHHHHHHHHhh
Q 007255          460 PPDLEARHEILRV----HTRN---------MKVG-DDVDLRSIAEE--TELFTGAELEGLCREAGIVALRED  515 (611)
Q Consensus       460 ~p~~~~r~~il~~----~~~~---------~~~~-~~~~~~~la~~--~~g~s~~~i~~~~~~a~~~a~~~~  515 (611)
                      +.+.++..+|+..    .+++         +.+. ++..++.+++.  ..++-.+.++.+++......+.+.
T Consensus       311 ~L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~L~~t~~al~~Ia~~~~~~~~GAR~Lrriie~~l~~~~~~~  382 (412)
T PRK05342        311 ELDEEALVRILTEPKNALVKQYQKLFEMDGVELEFTDEALEAIAKKAIERKTGARGLRSILEEILLDVMFEL  382 (412)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhCCCCCCCCchHHHHHHHHhHHHHHhc
Confidence            9999999999972    2221         1111 23336677765  345666788888777666665443

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.62  E-value=6.7e-15  Score=160.32  Aligned_cols=196  Identities=18%  Similarity=0.175  Sum_probs=144.4

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeec-c---
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS-G---  357 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~-~---  357 (611)
                      ..+.+.+|++++|++.+++.|...+..            .+.++++||+||+|+|||++|+++|+.++|.....+ .   
T Consensus        16 ~KyRP~~f~dliGq~~~v~~L~~~~~~------------gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~   83 (598)
T PRK09111         16 RKYRPQTFDDLIGQEAMVRTLTNAFET------------GRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTI   83 (598)
T ss_pred             hhhCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCcc
Confidence            345567899999999999999998873            255688999999999999999999999976532221 0   


Q ss_pred             -----------------hhhcccc--ccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          358 -----------------AELYSMY--VGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       358 -----------------~~~~~~~--~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                       .++....  ....-..++.+.+.+...    ...|++|||+|.+.              ....
T Consensus        84 ~~cg~c~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls--------------~~a~  149 (598)
T PRK09111         84 DLCGVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLS--------------TAAF  149 (598)
T ss_pred             ccCcccHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCC--------------HHHH
Confidence                             0111000  001133566666665432    24599999999882              3567


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~  493 (611)
                      +.|++.|+  ++.+.+.||++|+.++.+.+.+++  |+. .+.|..|+.++....++..+++..+. ++..+..++..+.
T Consensus       150 naLLKtLE--ePp~~~~fIl~tte~~kll~tI~S--Rcq-~~~f~~l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~  224 (598)
T PRK09111        150 NALLKTLE--EPPPHVKFIFATTEIRKVPVTVLS--RCQ-RFDLRRIEADVLAAHLSRIAAKEGVEVEDEALALIARAAE  224 (598)
T ss_pred             HHHHHHHH--hCCCCeEEEEEeCChhhhhHHHHh--hee-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            99999998  577788888899988888888887  886 89999999999999998777665544 3355778888887


Q ss_pred             CCCHHHHHHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGI  509 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~  509 (611)
                      | +.+++.+.+..+..
T Consensus       225 G-dlr~al~~Ldkli~  239 (598)
T PRK09111        225 G-SVRDGLSLLDQAIA  239 (598)
T ss_pred             C-CHHHHHHHHHHHHh
Confidence            7 77788777766543

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.62  E-value=1.9e-14  Score=152.32  Aligned_cols=190  Identities=23%  Similarity=0.296  Sum_probs=142.1

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc--------------
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--------------   80 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~--------------   80 (611)
                      .+.|++++|++.+++.|..++..            -+.+.++||+||+|+|||++|+.+|+.+++.              
T Consensus         9 P~~f~dliGQe~vv~~L~~a~~~------------~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C   76 (491)
T PRK14964          9 PSSFKDLVGQDVLVRILRNAFTL------------NKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNC   76 (491)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc------------CCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHH
Confidence            37889999999999999887643            1346789999999999999999999987532              


Q ss_pred             ----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHH
Q 007255           81 ----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (611)
Q Consensus        81 ----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l  150 (611)
                                ++.+++++      ......++.+.+.+...+..++..|++|||+|.|..          ..++.|+..+
T Consensus        77 ~~i~~~~~~Dv~eidaas------~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~----------~A~NaLLK~L  140 (491)
T PRK14964         77 ISIKNSNHPDVIEIDAAS------NTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSN----------SAFNALLKTL  140 (491)
T ss_pred             HHHhccCCCCEEEEeccc------CCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCH----------HHHHHHHHHH
Confidence                      23333321      122345677777766665566778999999998843          4578899999


Q ss_pred             hcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCc
Q 007255          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYV  229 (611)
Q Consensus       151 ~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~  229 (611)
                      ++      +++++.+|.+|+.++.+.+.+++  |+. .+.|..++.++....++..+...+..-+ ..+..++..++| +
T Consensus       141 Ee------Pp~~v~fIlatte~~Kl~~tI~S--Rc~-~~~f~~l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~G-s  210 (491)
T PRK14964        141 EE------PAPHVKFILATTEVKKIPVTIIS--RCQ-RFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSG-S  210 (491)
T ss_pred             hC------CCCCeEEEEEeCChHHHHHHHHH--hhe-eeecccccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-C
Confidence            87      33457788888888899999998  884 7999999999999999988876655432 347777887765 5


Q ss_pred             cccHHHHHHHHHH
Q 007255          230 GADLEALCREATM  242 (611)
Q Consensus       230 ~~dl~~l~~~a~~  242 (611)
                      .+++.++++.+..
T Consensus       211 lR~alslLdqli~  223 (491)
T PRK14964        211 MRNALFLLEQAAI  223 (491)
T ss_pred             HHHHHHHHHHHHH
Confidence            5666666666543

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.62  E-value=2.5e-14  Score=152.70  Aligned_cols=196  Identities=23%  Similarity=0.309  Sum_probs=142.1

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE-----------
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV-----------   83 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~-----------   83 (611)
                      .+.|++++|++.+++.|..++..            -+.+.++||+||+|||||++|+.+|+.+++....           
T Consensus        17 P~~f~dliGq~~vv~~L~~ai~~------------~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~   84 (507)
T PRK06645         17 PSNFAELQGQEVLVKVLSYTILN------------DRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQ   84 (507)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCC
Confidence            37889999999999999887643            1345789999999999999999999999763210           


Q ss_pred             -Eccccc--------cc--ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhc
Q 007255           84 -ISPHSV--------HK--AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS  152 (611)
Q Consensus        84 -v~~~~~--------~~--~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~  152 (611)
                       -+|..+        ..  .........++.+.+.+...+..++..|++|||+|.+..          ..++.|+..++.
T Consensus        85 C~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~----------~a~naLLk~LEe  154 (507)
T PRK06645         85 CTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSK----------GAFNALLKTLEE  154 (507)
T ss_pred             ChHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCH----------HHHHHHHHHHhh
Confidence             001011        00  001123456777777776666566778999999998843          456778888885


Q ss_pred             CCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCccc
Q 007255          153 NKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGA  231 (611)
Q Consensus       153 ~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~~  231 (611)
                            +++++++|.+|+.++.+.+.+++  |+ ..+.|..++.++...+++..++..+...+ ..+..++..++| +.+
T Consensus       155 ------pp~~~vfI~aTte~~kI~~tI~S--Rc-~~~ef~~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~G-slR  224 (507)
T PRK06645        155 ------PPPHIIFIFATTEVQKIPATIIS--RC-QRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEG-SAR  224 (507)
T ss_pred             ------cCCCEEEEEEeCChHHhhHHHHh--cc-eEEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHH
Confidence                  23457777778888899999998  88 48999999999999999998876655433 347778887776 556


Q ss_pred             cHHHHHHHHHH
Q 007255          232 DLEALCREATM  242 (611)
Q Consensus       232 dl~~l~~~a~~  242 (611)
                      ++.++++.+..
T Consensus       225 ~al~~Ldkai~  235 (507)
T PRK06645        225 DAVSILDQAAS  235 (507)
T ss_pred             HHHHHHHHHHH
Confidence            66666666543

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=99.62  E-value=4.6e-15  Score=156.03  Aligned_cols=169  Identities=26%  Similarity=0.409  Sum_probs=126.4

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc-------
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-------   91 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~-------   91 (611)
                      +|=.|++++|+++.+++.--       .-.|-...+-++|+||||+|||+++++||+.+|..|+.++...+.+       
T Consensus       411 eDHYgm~dVKeRILEfiAV~-------kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGH  483 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVG-------KLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGH  483 (906)
T ss_pred             ccccchHHHHHHHHHHHHHH-------hhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhccc
Confidence            35579999999999987432       2223445678999999999999999999999999999998765432       


Q ss_pred             --ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh---------cCCCCCCCC
Q 007255           92 --AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD---------SNKPSKTSV  160 (611)
Q Consensus        92 --~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~---------~~~~~~~~~  160 (611)
                        .|.|.....+-+.++....    +.| +++|||+|.+...  ..++.    .++|+.++|         ++-......
T Consensus       484 RRTYVGAMPGkiIq~LK~v~t----~NP-liLiDEvDKlG~g--~qGDP----asALLElLDPEQNanFlDHYLdVp~DL  552 (906)
T KOG2004|consen  484 RRTYVGAMPGKIIQCLKKVKT----ENP-LILIDEVDKLGSG--HQGDP----ASALLELLDPEQNANFLDHYLDVPVDL  552 (906)
T ss_pred             ceeeeccCChHHHHHHHhhCC----CCc-eEEeehhhhhCCC--CCCCh----HHHHHHhcChhhccchhhhccccccch
Confidence              3556555666565555543    345 8889999999832  22222    345555554         333333345


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhc
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK  208 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~  208 (611)
                      .+|+||||.|..+.++++|+.  |+. .|+++-|..++...|.+.++-
T Consensus       553 SkVLFicTAN~idtIP~pLlD--RME-vIelsGYv~eEKv~IA~~yLi  597 (906)
T KOG2004|consen  553 SKVLFICTANVIDTIPPPLLD--RME-VIELSGYVAEEKVKIAERYLI  597 (906)
T ss_pred             hheEEEEeccccccCChhhhh--hhh-eeeccCccHHHHHHHHHHhhh
Confidence            689999999999999999998  985 899999999999999998763

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.62  E-value=8.1e-15  Score=154.31  Aligned_cols=195  Identities=16%  Similarity=0.171  Sum_probs=137.5

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee-------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL-------  355 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~-------  355 (611)
                      .+.+.+|++|+|++.+++.|+..+..            .+.++++||+||||+|||++|+++|+.+.+.-..-       
T Consensus         9 k~RP~~~~eiiGq~~~~~~L~~~~~~------------~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~   76 (397)
T PRK14955          9 KYRPKKFADITAQEHITRTIQNSLRM------------GRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQE   76 (397)
T ss_pred             hcCCCcHhhccChHHHHHHHHHHHHh------------CCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCccccccc
Confidence            34567899999999999999988873            25667899999999999999999999997741000       


Q ss_pred             ---cc--------------hhhccccccc---hHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhH
Q 007255          356 ---SG--------------AELYSMYVGE---SEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGE  411 (611)
Q Consensus       356 ---~~--------------~~~~~~~~g~---~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~  411 (611)
                         .+              .++. .+.+.   ....++.+.+.+..    ....|++|||+|.+.              .
T Consensus        77 ~~~~c~~c~~c~~~~~~~~~n~~-~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~--------------~  141 (397)
T PRK14955         77 VTEPCGECESCRDFDAGTSLNIS-EFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLS--------------I  141 (397)
T ss_pred             CCCCCCCCHHHHHHhcCCCCCeE-eecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCC--------------H
Confidence               00              0100 01111   12345555444421    123499999999872              3


Q ss_pred             HHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCC-CCcccHHHHHH
Q 007255          412 RLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKV-GDDVDLRSIAE  490 (611)
Q Consensus       412 ~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~-~~~~~~~~la~  490 (611)
                      ...+.|++.++  ++++.+++|++|+.+..+-+++.+  |+. .+.|+.++.++..+.++..++.... .++..++.++.
T Consensus       142 ~~~~~LLk~LE--ep~~~t~~Il~t~~~~kl~~tl~s--R~~-~v~f~~l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~  216 (397)
T PRK14955        142 AAFNAFLKTLE--EPPPHAIFIFATTELHKIPATIAS--RCQ-RFNFKRIPLEEIQQQLQGICEAEGISVDADALQLIGR  216 (397)
T ss_pred             HHHHHHHHHHh--cCCCCeEEEEEeCChHHhHHHHHH--HHH-HhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            35678899988  466677788888888888888887  776 8899999999988888876655544 34456788888


Q ss_pred             hCCCCCHHHHHHHHHHHHHH
Q 007255          491 ETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       491 ~~~g~s~~~i~~~~~~a~~~  510 (611)
                      .+.| +.+.+.+.+..+..+
T Consensus       217 ~s~g-~lr~a~~~L~kl~~~  235 (397)
T PRK14955        217 KAQG-SMRDAQSILDQVIAF  235 (397)
T ss_pred             HcCC-CHHHHHHHHHHHHHh
Confidence            8877 667777776665444

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.62  E-value=1.4e-14  Score=157.43  Aligned_cols=219  Identities=25%  Similarity=0.328  Sum_probs=143.8

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~   85 (611)
                      ..|++++|++..++.+...+..             ..+.++||+||||||||++|+++++.+          +.+|+.++
T Consensus        62 ~~f~~iiGqs~~i~~l~~al~~-------------~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id  128 (531)
T TIGR02902        62 KSFDEIIGQEEGIKALKAALCG-------------PNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEID  128 (531)
T ss_pred             CCHHHeeCcHHHHHHHHHHHhC-------------CCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEc
Confidence            6788999999999998865422             245799999999999999999998753          35788888


Q ss_pred             ccccccccccchHHHHHH----------HHHHH------HhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHH
Q 007255           86 PHSVHKAHVGESEKALRE----------AFSQA------SSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (611)
Q Consensus        86 ~~~~~~~~~~~~~~~l~~----------~f~~~------~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~  149 (611)
                      +........+.....+..          .|...      ........+++|||||+|.|.+          ..++.|+..
T Consensus       129 ~~~~~~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~----------~~q~~LL~~  198 (531)
T TIGR02902       129 ATTARFDERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHP----------VQMNKLLKV  198 (531)
T ss_pred             cccccCCccccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCCH----------HHHHHHHHH
Confidence            764211000000000000          00000      0000123467999999999865          567888888


Q ss_pred             HhcCCCC----------------------CCCCCcEE-EEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHh
Q 007255          150 MDSNKPS----------------------KTSVPHVV-VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLY  206 (611)
Q Consensus       150 l~~~~~~----------------------~~~~~~v~-ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~  206 (611)
                      ++.....                      ...+.++. +++|++.++.++|++++  |+. .+.|++++.+++.+|++..
T Consensus       199 Le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrs--R~~-~I~f~pL~~eei~~Il~~~  275 (531)
T TIGR02902       199 LEDRKVFLDSAYYNSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRS--RCV-EIFFRPLLDEEIKEIAKNA  275 (531)
T ss_pred             HHhCeeeeccccccccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhh--hhh-eeeCCCCCHHHHHHHHHHH
Confidence            8653210                      00112344 45556779999999998  885 7899999999999999998


Q ss_pred             hcCCCCCCc-ccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHh
Q 007255          207 TKKVPLDAN-VDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARS  270 (611)
Q Consensus       207 ~~~~~~~~~-~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~  270 (611)
                      +++....-+ ..++.++..+  .+++++.++++.|+..+..+.        ...++.+|+.....
T Consensus       276 a~k~~i~is~~al~~I~~y~--~n~Rel~nll~~Aa~~A~~~~--------~~~It~~dI~~vl~  330 (531)
T TIGR02902       276 AEKIGINLEKHALELIVKYA--SNGREAVNIVQLAAGIALGEG--------RKRILAEDIEWVAE  330 (531)
T ss_pred             HHHcCCCcCHHHHHHHHHhh--hhHHHHHHHHHHHHHHHhhCC--------CcEEcHHHHHHHhC
Confidence            877654422 2355555443  378999999999887665432        13477888877754

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.61  E-value=1.8e-14  Score=157.17  Aligned_cols=196  Identities=16%  Similarity=0.194  Sum_probs=139.3

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee-------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL-------  355 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~-------  355 (611)
                      .+.+.+|++|+|++.+++.|+..+..            .+.++++||+||+|||||++|+++|+.++|.-..-       
T Consensus         9 kyRP~~f~eivGQe~i~~~L~~~i~~------------~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~   76 (620)
T PRK14954          9 KYRPSKFADITAQEHITHTIQNSLRM------------DRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQE   76 (620)
T ss_pred             HHCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccc
Confidence            34577899999999999999998763            35667899999999999999999999998742100       


Q ss_pred             ---cc--------------hhhccccccc---hHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhH
Q 007255          356 ---SG--------------AELYSMYVGE---SEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGE  411 (611)
Q Consensus       356 ---~~--------------~~~~~~~~g~---~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~  411 (611)
                         .+              .++. .+.|.   ....++.+.+.+..    ....|++|||+|.+.              .
T Consensus        77 ~~~~Cg~C~sC~~~~~g~~~n~~-~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt--------------~  141 (620)
T PRK14954         77 VTEPCGECESCRDFDAGTSLNIS-EFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLS--------------T  141 (620)
T ss_pred             cCCCCccCHHHHHHhccCCCCeE-EecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcC--------------H
Confidence               00              0000 01111   12345555444421    223499999999872              3


Q ss_pred             HHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCC-CCcccHHHHHH
Q 007255          412 RLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKV-GDDVDLRSIAE  490 (611)
Q Consensus       412 ~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~-~~~~~~~~la~  490 (611)
                      ...+.|++.|+  ++++.+++|++|+.++.+-+.+.+  |+. .+.|..++.++....++..++..++ .++..++.++.
T Consensus       142 ~a~naLLK~LE--ePp~~tv~IL~t~~~~kLl~TI~S--Rc~-~vef~~l~~~ei~~~L~~i~~~egi~I~~eal~~La~  216 (620)
T PRK14954        142 AAFNAFLKTLE--EPPPHAIFIFATTELHKIPATIAS--RCQ-RFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIAR  216 (620)
T ss_pred             HHHHHHHHHHh--CCCCCeEEEEEeCChhhhhHHHHh--hce-EEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            45789999998  566778888888888888888887  776 8999999999988888876665444 24556788888


Q ss_pred             hCCCCCHHHHHHHHHHHHHHH
Q 007255          491 ETELFTGAELEGLCREAGIVA  511 (611)
Q Consensus       491 ~~~g~s~~~i~~~~~~a~~~a  511 (611)
                      .+.| +.+++.+.+.....+.
T Consensus       217 ~s~G-dlr~al~eLeKL~~y~  236 (620)
T PRK14954        217 KAQG-SMRDAQSILDQVIAFS  236 (620)
T ss_pred             HhCC-CHHHHHHHHHHHHHhc
Confidence            8877 6666666666554443

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=99.61  E-value=2.8e-14  Score=158.48  Aligned_cols=227  Identities=20%  Similarity=0.239  Sum_probs=147.7

Q ss_pred             cCCCcccccccchhHHHH---HHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchh
Q 007255          283 EIPKVTWEDIGGLRDLKK---KLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE  359 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~---~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~  359 (611)
                      ...+.++++++|++.+..   .+.+.+..             ....+++||||||||||++|+++|+..+.+++.+++..
T Consensus        21 k~RP~tldd~vGQe~ii~~~~~L~~~i~~-------------~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~   87 (725)
T PRK13341         21 RLRPRTLEEFVGQDHILGEGRLLRRAIKA-------------DRVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVL   87 (725)
T ss_pred             hcCCCcHHHhcCcHHHhhhhHHHHHHHhc-------------CCCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhh
Confidence            344678999999998874   56666542             22347999999999999999999999999998888653


Q ss_pred             hccccccchHHHHHHHHHHHH-----hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEE
Q 007255          360 LYSMYVGESEALLRNTFQRAR-----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLA  434 (611)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a~-----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~  434 (611)
                      .     +  ...++..+..+.     .....+|||||+|.+-              ....+.|+..++    .+.+++|+
T Consensus        88 ~-----~--i~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln--------------~~qQdaLL~~lE----~g~IiLI~  142 (725)
T PRK13341         88 A-----G--VKDLRAEVDRAKERLERHGKRTILFIDEVHRFN--------------KAQQDALLPWVE----NGTITLIG  142 (725)
T ss_pred             h-----h--hHHHHHHHHHHHHHhhhcCCceEEEEeChhhCC--------------HHHHHHHHHHhc----CceEEEEE
Confidence            1     1  112333333331     1245699999999872              233466777664    35677777


Q ss_pred             ecCC--CcccchhccCCCCccceeecCCCCHHHHHHHHHHHhc-------CCCCC-CcccHHHHHHhCCCCCHHHHHHHH
Q 007255          435 ATNR--PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTR-------NMKVG-DDVDLRSIAEETELFTGAELEGLC  504 (611)
Q Consensus       435 ~tn~--~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~-------~~~~~-~~~~~~~la~~~~g~s~~~i~~~~  504 (611)
                      +|+.  ...+++++++  |+. .+.|++++.+++..+++..+.       ...+. ++..+..|++.+.| +.+++.+++
T Consensus       143 aTTenp~~~l~~aL~S--R~~-v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~G-D~R~lln~L  218 (725)
T PRK13341        143 ATTENPYFEVNKALVS--RSR-LFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANG-DARSLLNAL  218 (725)
T ss_pred             ecCCChHhhhhhHhhc--ccc-ceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCC-CHHHHHHHH
Confidence            6643  2468899998  764 789999999999999997765       22222 34457888888876 667777777


Q ss_pred             HHHHHHHHHhhcccccccHHHHHHHHhhcCC------CCCHHHHHHHHHHhhc
Q 007255          505 REAGIVALREDISATAVRNRHFQTVKDSLKP------ALTKEEIDSYSSFMKS  551 (611)
Q Consensus       505 ~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~------~~~~~~~~~~~~~~~~  551 (611)
                      +.+...+.........++.++...++.....      ....+.|..|.+.++.
T Consensus       219 e~a~~~~~~~~~~~i~It~~~~~e~l~~~~~~ydk~gd~hyd~Isa~~ksirg  271 (725)
T PRK13341        219 ELAVESTPPDEDGLIDITLAIAEESIQQRAVLYDKEGDAHFDTISAFIKSLRG  271 (725)
T ss_pred             HHHHHhcccCCCCceeccHHHHHHHHHHhhhhcccCCCCCHHHHHHHHHHHhc
Confidence            7665322211111223676777776654211      2334455555555544

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.61  E-value=3.1e-14  Score=146.27  Aligned_cols=160  Identities=20%  Similarity=0.192  Sum_probs=115.1

Q ss_pred             cccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhh
Q 007255          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (611)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~  360 (611)
                      ...+.+.++++++|++.+++.+..++..           + ..++.+||+||||+|||++|++++++.+.+++.+++++ 
T Consensus        12 ~~kyrP~~~~~~~~~~~~~~~l~~~~~~-----------~-~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~-   78 (316)
T PHA02544         12 EQKYRPSTIDECILPAADKETFKSIVKK-----------G-RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD-   78 (316)
T ss_pred             eeccCCCcHHHhcCcHHHHHHHHHHHhc-----------C-CCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc-
Confidence            3445667899999999999999988762           2 34556777999999999999999999999999998876 


Q ss_pred             ccccccchHHHHHHHHHHHH-hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCC
Q 007255          361 YSMYVGESEALLRNTFQRAR-LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP  439 (611)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~-~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~  439 (611)
                       .. .......+........ ...+.|++|||+|.+..             ......|...++.  ...++.+|++||.+
T Consensus        79 -~~-~~~i~~~l~~~~~~~~~~~~~~vliiDe~d~l~~-------------~~~~~~L~~~le~--~~~~~~~Ilt~n~~  141 (316)
T PHA02544         79 -CR-IDFVRNRLTRFASTVSLTGGGKVIIIDEFDRLGL-------------ADAQRHLRSFMEA--YSKNCSFIITANNK  141 (316)
T ss_pred             -cc-HHHHHHHHHHHHHhhcccCCCeEEEEECcccccC-------------HHHHHHHHHHHHh--cCCCceEEEEcCCh
Confidence             22 2211122222211111 12467999999997721             1233445555663  44567888899999


Q ss_pred             cccchhccCCCCccceeecCCCCHHHHHHHHHHH
Q 007255          440 HAIDAALMRPGRFDLVLYVPPPDLEARHEILRVH  473 (611)
Q Consensus       440 ~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~  473 (611)
                      +.+++++.+  ||. .+.|+.|+.+++..+++..
T Consensus       142 ~~l~~~l~s--R~~-~i~~~~p~~~~~~~il~~~  172 (316)
T PHA02544        142 NGIIEPLRS--RCR-VIDFGVPTKEEQIEMMKQM  172 (316)
T ss_pred             hhchHHHHh--hce-EEEeCCCCHHHHHHHHHHH
Confidence            999999998  996 7899999999998887643

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.60  E-value=6.5e-14  Score=146.25  Aligned_cols=232  Identities=19%  Similarity=0.241  Sum_probs=147.9

Q ss_pred             cccc-ccCCcHHHHHHHHHHHHhhhhCchHHHhc--CC-CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc
Q 007255           16 KAEE-AIGGNRAAVEALRELITFPLLYSSQAQKL--GL-KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (611)
Q Consensus        16 ~~~~-~i~G~~~~~~~l~~~l~~~~~~~~~~~~~--g~-~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~   91 (611)
                      ..++ .|+|++.+++.|..++..++.........  .. .+..++||+||||||||++|+++|+.++.+++.++++.+..
T Consensus        67 ~~L~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~  146 (412)
T PRK05342         67 AHLDQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTE  146 (412)
T ss_pred             HHHhhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhccc
Confidence            4454 48999999999988876544332211000  11 13479999999999999999999999999999999987653


Q ss_pred             -ccccchH-HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC----chhhHHHHHHHHHHHhcCC-------CCCC
Q 007255           92 -AHVGESE-KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNK-------PSKT  158 (611)
Q Consensus        92 -~~~~~~~-~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~----~~~~~~~~~~ll~~l~~~~-------~~~~  158 (611)
                       .+.|... ..+..++..+........++||||||+|.+.+..++.    ......+++.|+.+|++..       ....
T Consensus       147 ~gyvG~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~~gg~~~  226 (412)
T PRK05342        147 AGYVGEDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQGGRKH  226 (412)
T ss_pred             CCcccchHHHHHHHHHHhccccHHHcCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEeCCCCCcCc
Confidence             4555533 3334444332222223458899999999998763221    1122368899999998531       1111


Q ss_pred             CCCcEEEEEeecCcc----------------------------------------------------cccHHhhccCCcc
Q 007255          159 SVPHVVVVASTNRVD----------------------------------------------------AIDPALRRSGRFD  186 (611)
Q Consensus       159 ~~~~v~ii~ttn~~~----------------------------------------------------~l~~~l~~~~Rf~  186 (611)
                      ...++++|.|+|...                                                    .+.|++..  |++
T Consensus       227 ~~~~~~~i~t~nilfi~~Gaf~g~~~~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~dL~~~gf~PEflg--Rld  304 (412)
T PRK05342        227 PQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQVEPEDLIKFGLIPEFIG--RLP  304 (412)
T ss_pred             CCCCeEEeccCCceeeecccccCcHHHHHHHHhhcccCCccccccccccchhHHHHHhcCHHHHHHHhhhHHHhC--CCC
Confidence            222345555554400                                                    13466654  999


Q ss_pred             eEEEccCCCHHHHHHHHHH----hhcC-------CCCC---CcccHHHHHHh--ccCCccccHHHHHHHHHHHHhhhcc
Q 007255          187 AEVEVTVPTAEERFEILKL----YTKK-------VPLD---ANVDLEAIATS--CNGYVGADLEALCREATMSAVKRSS  249 (611)
Q Consensus       187 ~~i~~~~p~~~~r~~Il~~----~~~~-------~~~~---~~~~~~~la~~--~~g~~~~dl~~l~~~a~~~a~~r~~  249 (611)
                      ..+.|.+.+.+++.+|+..    .+++       ....   .+.-++.+++.  ..++-+|.|+.+++..+...+....
T Consensus       305 ~iv~f~~L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~L~~t~~al~~Ia~~~~~~~~GAR~Lrriie~~l~~~~~~~p  383 (412)
T PRK05342        305 VVATLEELDEEALVRILTEPKNALVKQYQKLFEMDGVELEFTDEALEAIAKKAIERKTGARGLRSILEEILLDVMFELP  383 (412)
T ss_pred             eeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhCCCCCCCCchHHHHHHHHhHHHHHhcc
Confidence            9999999999999999972    2221       1121   11226667765  3455678888888887776665443

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=99.60  E-value=1.6e-14  Score=140.86  Aligned_cols=227  Identities=21%  Similarity=0.245  Sum_probs=146.3

Q ss_pred             CCCcccccccchhHHHHH---HHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc---EEeecc
Q 007255          284 IPKVTWEDIGGLRDLKKK---LQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS---FFSLSG  357 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~---l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~---~~~~~~  357 (611)
                      ..+.+++|.+|++++..+   |+.+++.             ..-.+++|+||||||||+||+.++.....+   |+++++
T Consensus       132 mRPktL~dyvGQ~hlv~q~gllrs~ieq-------------~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSA  198 (554)
T KOG2028|consen  132 MRPKTLDDYVGQSHLVGQDGLLRSLIEQ-------------NRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSA  198 (554)
T ss_pred             cCcchHHHhcchhhhcCcchHHHHHHHc-------------CCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEec
Confidence            345678888888876543   3444442             223479999999999999999999988665   777776


Q ss_pred             hhhccccccchHHHHHHHHHHHHhc-----CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEE
Q 007255          358 AELYSMYVGESEALLRNTFQRARLA-----APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILV  432 (611)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~a~~~-----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  432 (611)
                      .+-       ....++.+|+.++..     ...||||||||.+-              +.-+..||-..    ..+.+++
T Consensus       199 t~a-------~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFN--------------ksQQD~fLP~V----E~G~I~l  253 (554)
T KOG2028|consen  199 TNA-------KTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFN--------------KSQQDTFLPHV----ENGDITL  253 (554)
T ss_pred             ccc-------chHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhh--------------hhhhhccccee----ccCceEE
Confidence            432       345588888887653     35699999999872              11123344443    4577889


Q ss_pred             EEecC--CCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhc---CC-----CCCC------cccHHHHHHhCCCCC
Q 007255          433 LAATN--RPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTR---NM-----KVGD------DVDLRSIAEETELFT  496 (611)
Q Consensus       433 I~~tn--~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~---~~-----~~~~------~~~~~~la~~~~g~s  496 (611)
                      ||+|+  ....+..+|++  |+. ++.+.....+....||.....   +-     ++.+      +--++.++..++|-+
T Consensus       254 IGATTENPSFqln~aLlS--RC~-VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDa  330 (554)
T KOG2028|consen  254 IGATTENPSFQLNAALLS--RCR-VFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDA  330 (554)
T ss_pred             EecccCCCccchhHHHHh--ccc-eeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchH
Confidence            98874  34478999998  876 677777888888888875322   11     1111      223788999998843


Q ss_pred             HHHHHHHHHHHHHHHHHh--hcccccccHHHHHHHHhhcCCCCC---HHHHHHHHHHhhcC
Q 007255          497 GAELEGLCREAGIVALRE--DISATAVRNRHFQTVKDSLKPALT---KEEIDSYSSFMKSQ  552 (611)
Q Consensus       497 ~~~i~~~~~~a~~~a~~~--~~~~~~i~~~~~~~~l~~~~~~~~---~~~~~~~~~~~~~~  552 (611)
                      .+ .-+++..++.....+  +.+..+++.+|+.+.+..-.-.++   ++.......|.+..
T Consensus       331 R~-aLN~Lems~~m~~tr~g~~~~~~lSidDvke~lq~s~~~YDr~Ge~HYntISA~HKSm  390 (554)
T KOG2028|consen  331 RA-ALNALEMSLSMFCTRSGQSSRVLLSIDDVKEGLQRSHILYDRAGEEHYNTISALHKSM  390 (554)
T ss_pred             HH-HHHHHHHHHHHHHhhcCCcccceecHHHHHHHHhhccceecccchhHHHHHHHHHHhh
Confidence            33 333344443333322  235568999999999976543332   33444455555443

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.60  E-value=3.1e-14  Score=147.86  Aligned_cols=211  Identities=20%  Similarity=0.236  Sum_probs=139.9

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC-----CcEEeec
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE-----ASFFSLS  356 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~-----~~~~~~~  356 (611)
                      ..+.+.+|++++|++.+++.|..++..           + . ..+++|+||||||||++|+++|+++.     .+++.++
T Consensus         7 ~ky~P~~~~~~~g~~~~~~~L~~~~~~-----------~-~-~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~   73 (337)
T PRK12402          7 EKYRPALLEDILGQDEVVERLSRAVDS-----------P-N-LPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFN   73 (337)
T ss_pred             HhhCCCcHHHhcCCHHHHHHHHHHHhC-----------C-C-CceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEec
Confidence            344567899999999999999988763           1 1 22699999999999999999999984     3467788


Q ss_pred             chhhccccc-------------cc-------hHHHHHHHHHHHHh-----cCCcEEEEcccccccccCCCCCCCCcchhH
Q 007255          357 GAELYSMYV-------------GE-------SEALLRNTFQRARL-----AAPSIIFFDEADVVGAKRGGSSSTSITVGE  411 (611)
Q Consensus       357 ~~~~~~~~~-------------g~-------~~~~~~~~~~~a~~-----~~p~il~iDeid~l~~~~~~~~~~~~~~~~  411 (611)
                      +.++.....             +.       ....++.+.+....     ..+.+|+|||+|.+.              .
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~--------------~  139 (337)
T PRK12402         74 VADFFDQGKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALR--------------E  139 (337)
T ss_pred             hhhhhhcchhhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCC--------------H
Confidence            776542210             10       11233333333322     224599999999772              2


Q ss_pred             HHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHH
Q 007255          412 RLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAE  490 (611)
Q Consensus       412 ~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~  490 (611)
                      ...+.|...++..  .+...+|++|+.+..+.+++.+  |+. .+.+++|+.++...+++..+++.++. ++..++.++.
T Consensus       140 ~~~~~L~~~le~~--~~~~~~Il~~~~~~~~~~~L~s--r~~-~v~~~~~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~  214 (337)
T PRK12402        140 DAQQALRRIMEQY--SRTCRFIIATRQPSKLIPPIRS--RCL-PLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAY  214 (337)
T ss_pred             HHHHHHHHHHHhc--cCCCeEEEEeCChhhCchhhcC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            3345666677642  3345566677777777778877  764 78999999999999999777655543 4456788888


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhh
Q 007255          491 ETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDS  532 (611)
Q Consensus       491 ~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~  532 (611)
                      .+.|    +++.++......+.    ....|+.+++..++..
T Consensus       215 ~~~g----dlr~l~~~l~~~~~----~~~~It~~~v~~~~~~  248 (337)
T PRK12402        215 YAGG----DLRKAILTLQTAAL----AAGEITMEAAYEALGD  248 (337)
T ss_pred             HcCC----CHHHHHHHHHHHHH----cCCCCCHHHHHHHhCC
Confidence            7754    44444444433331    1235888877776643

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.59  E-value=3e-14  Score=154.23  Aligned_cols=196  Identities=19%  Similarity=0.205  Sum_probs=139.1

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE-------E-cc
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV-------I-SP   86 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~-------v-~~   86 (611)
                      .+.|++|+|++.+++.|..++..            -+.+..+||+||+|||||++++.+|+.+++.-..       + +|
T Consensus        12 P~tFddIIGQe~vv~~L~~ai~~------------~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sC   79 (709)
T PRK08691         12 PKTFADLVGQEHVVKALQNALDE------------GRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSC   79 (709)
T ss_pred             CCCHHHHcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHH
Confidence            36789999999999999998754            1345689999999999999999999998653110       0 00


Q ss_pred             -----c---ccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC
Q 007255           87 -----H---SVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS  156 (611)
Q Consensus        87 -----~---~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~  156 (611)
                           .   ++.  +.........++.+++.+......++..|+||||+|.|..          ...+.|++.|+..   
T Consensus        80 r~i~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~----------~A~NALLKtLEEP---  146 (709)
T PRK08691         80 TQIDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSK----------SAFNAMLKTLEEP---  146 (709)
T ss_pred             HHHhccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCH----------HHHHHHHHHHHhC---
Confidence                 0   010  0001122345667766655444445678999999998743          4567889999862   


Q ss_pred             CCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCccccHHH
Q 007255          157 KTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEA  235 (611)
Q Consensus       157 ~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~~dl~~  235 (611)
                         ++++.+|.+|+.+..+.+.+++  ||. .+.|..++.++...+++..+...++..+ ..+..++..+.| +.+++.+
T Consensus       147 ---p~~v~fILaTtd~~kL~~TIrS--RC~-~f~f~~Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A~G-slRdAln  219 (709)
T PRK08691        147 ---PEHVKFILATTDPHKVPVTVLS--RCL-QFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAG-SMRDALS  219 (709)
T ss_pred             ---CCCcEEEEEeCCccccchHHHH--HHh-hhhcCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHhCC-CHHHHHH
Confidence               2356778888888899999987  884 7899999999999999998887665433 247777777754 4566666


Q ss_pred             HHHHHHH
Q 007255          236 LCREATM  242 (611)
Q Consensus       236 l~~~a~~  242 (611)
                      +++.+..
T Consensus       220 LLDqaia  226 (709)
T PRK08691        220 LLDQAIA  226 (709)
T ss_pred             HHHHHHH
Confidence            6666553

>PLN03025 replication factor C subunit; Provisional

Probab=99.59  E-value=2.5e-14  Score=146.67  Aligned_cols=176  Identities=21%  Similarity=0.238  Sum_probs=122.8

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEcccc
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHS   88 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~-----~~~~v~~~~   88 (611)
                      ..+.+++++|++++++.|+.++..             ....++||+||||||||++++++|+++..     .++.+++++
T Consensus         8 rP~~l~~~~g~~~~~~~L~~~~~~-------------~~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd   74 (319)
T PLN03025          8 RPTKLDDIVGNEDAVSRLQVIARD-------------GNMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASD   74 (319)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHhc-------------CCCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccc
Confidence            347889999999999999887543             12247999999999999999999999833     355556554


Q ss_pred             cccccccchHHHHHHHHHHHHhh---hhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEE
Q 007255           89 VHKAHVGESEKALREAFSQASSH---ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVV  165 (611)
Q Consensus        89 ~~~~~~~~~~~~l~~~f~~~~~~---~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~i  165 (611)
                      ...      ...++...+.....   ...++..|++|||+|.|..          ..++.|+..++....      .+.+
T Consensus        75 ~~~------~~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt~----------~aq~aL~~~lE~~~~------~t~~  132 (319)
T PLN03025         75 DRG------IDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTS----------GAQQALRRTMEIYSN------TTRF  132 (319)
T ss_pred             ccc------HHHHHHHHHHHHhccccCCCCCeEEEEEechhhcCH----------HHHHHHHHHHhcccC------CceE
Confidence            321      11223222221111   1113467999999999854          446778888875322      2457


Q ss_pred             EEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccC
Q 007255          166 VASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNG  227 (611)
Q Consensus       166 i~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g  227 (611)
                      |.+||....+.+++++  |+. .+.|++|+.++....++..++..+.. .+..+..++..+.|
T Consensus       133 il~~n~~~~i~~~L~S--Rc~-~i~f~~l~~~~l~~~L~~i~~~egi~i~~~~l~~i~~~~~g  192 (319)
T PLN03025        133 ALACNTSSKIIEPIQS--RCA-IVRFSRLSDQEILGRLMKVVEAEKVPYVPEGLEAIIFTADG  192 (319)
T ss_pred             EEEeCCccccchhHHH--hhh-cccCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Confidence            7788888899999998  874 79999999999999999888765543 23347777776654

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.59  E-value=2.5e-14  Score=149.99  Aligned_cols=196  Identities=17%  Similarity=0.239  Sum_probs=139.5

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhh--
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL--  360 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~--  360 (611)
                      .+.+.+|++++|++.+.+.+...+..           | ..++++|||||||+|||++|+++|+.++++.......++  
T Consensus        10 k~rP~~~~~iig~~~~~~~l~~~i~~-----------~-~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~   77 (367)
T PRK14970         10 KYRPQTFDDVVGQSHITNTLLNAIEN-----------N-HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSF   77 (367)
T ss_pred             HHCCCcHHhcCCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCc
Confidence            34577899999999999999998873           2 445789999999999999999999998653211110000  


Q ss_pred             ----ccccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEE
Q 007255          361 ----YSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILV  432 (611)
Q Consensus       361 ----~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  432 (611)
                          ...........++.+++.+...    .+.|++|||+|.+.              ....+.|++.++.  ++...++
T Consensus        78 ~~~~l~~~~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~--------------~~~~~~ll~~le~--~~~~~~~  141 (367)
T PRK14970         78 NIFELDAASNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLS--------------SAAFNAFLKTLEE--PPAHAIF  141 (367)
T ss_pred             ceEEeccccCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcC--------------HHHHHHHHHHHhC--CCCceEE
Confidence                0001111234566666665432    34599999999772              2346788888873  5556777


Q ss_pred             EEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 007255          433 LAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       433 I~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~  510 (611)
                      |++|+.+..+.+++.+  |+. .+.|+.|+.++...++...+.+.++. ++..+..++..+.| +.+.+.+.++....+
T Consensus       142 Il~~~~~~kl~~~l~s--r~~-~v~~~~~~~~~l~~~l~~~~~~~g~~i~~~al~~l~~~~~g-dlr~~~~~lekl~~y  216 (367)
T PRK14970        142 ILATTEKHKIIPTILS--RCQ-IFDFKRITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADG-ALRDALSIFDRVVTF  216 (367)
T ss_pred             EEEeCCcccCCHHHHh--cce-eEecCCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCC-CHHHHHHHHHHHHHh
Confidence            7788888899999887  776 78999999999999988766665543 45667888888776 667777777665543

>PRK06893 DNA replication initiation factor; Validated

Probab=99.59  E-value=5.2e-14  Score=136.99  Aligned_cols=180  Identities=11%  Similarity=0.099  Sum_probs=114.3

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCC
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGG  401 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~  401 (611)
                      ..++||||||||||+|++|+|+++   +.....++..+..        .....+++..  .+.++|+|||++.+.++.  
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~--------~~~~~~~~~~--~~~dlLilDDi~~~~~~~--  107 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQ--------YFSPAVLENL--EQQDLVCLDDLQAVIGNE--  107 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhh--------hhhHHHHhhc--ccCCEEEEeChhhhcCCh--
Confidence            357999999999999999999986   3344444443211        1111223222  245799999999885331  


Q ss_pred             CCCCCcchhHHHHHHHHHHhcCCCCCCC-eEEEEecCCCcccc---hhccCCCCccceeecCCCCHHHHHHHHHHHhcCC
Q 007255          402 SSSTSITVGERLLSTLLTEMDGLEQAKG-ILVLAATNRPHAID---AALMRPGRFDLVLYVPPPDLEARHEILRVHTRNM  477 (611)
Q Consensus       402 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~-~~vI~~tn~~~~ld---~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~  477 (611)
                             ...   ..|+..++.....++ +++++++..|..++   +.+.+..++...+.++.|+.++|.+|++..+...
T Consensus       108 -------~~~---~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~  177 (229)
T PRK06893        108 -------EWE---LAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQR  177 (229)
T ss_pred             -------HHH---HHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHc
Confidence                   112   233333333233344 44555666677654   7888734455788999999999999999766544


Q ss_pred             CCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          478 KVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       478 ~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      .+. ++.-+..|++...| +.+.+..++......+..+   .+++|...+..++
T Consensus       178 ~l~l~~~v~~~L~~~~~~-d~r~l~~~l~~l~~~~~~~---~~~it~~~v~~~L  227 (229)
T PRK06893        178 GIELSDEVANFLLKRLDR-DMHTLFDALDLLDKASLQA---QRKLTIPFVKEIL  227 (229)
T ss_pred             CCCCCHHHHHHHHHhccC-CHHHHHHHHHHHHHHHHhc---CCCCCHHHHHHHh
Confidence            443 34457899999887 7788888877654333321   3457776666554

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.59  E-value=4.2e-14  Score=149.99  Aligned_cols=184  Identities=26%  Similarity=0.382  Sum_probs=129.3

Q ss_pred             cccccccCCcHHHHHH---HHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc
Q 007255           15 WKAEEAIGGNRAAVEA---LRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~---l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~   91 (611)
                      .+.+++++|+++.+..   |.+++..             ....+++|+||||||||++++++++.++..++.+++...  
T Consensus         8 P~~l~d~vGq~~~v~~~~~L~~~i~~-------------~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~--   72 (413)
T PRK13342          8 PKTLDEVVGQEHLLGPGKPLRRMIEA-------------GRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTS--   72 (413)
T ss_pred             CCCHHHhcCcHHHhCcchHHHHHHHc-------------CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccc--
Confidence            4678999999999776   7776632             134589999999999999999999999999999887542  


Q ss_pred             ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee--
Q 007255           92 AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST--  169 (611)
Q Consensus        92 ~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt--  169 (611)
                           ....++.+++.+......+++.||||||+|.+..          ..+..|+..++..        .+++|++|  
T Consensus        73 -----~~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~~----------~~q~~LL~~le~~--------~iilI~att~  129 (413)
T PRK13342         73 -----GVKDLREVIEEARQRRSAGRRTILFIDEIHRFNK----------AQQDALLPHVEDG--------TITLIGATTE  129 (413)
T ss_pred             -----cHHHHHHHHHHHHHhhhcCCceEEEEechhhhCH----------HHHHHHHHHhhcC--------cEEEEEeCCC
Confidence                 1234555565554433344678999999998753          3456777777642        35666654  


Q ss_pred             cCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCC--CC-C-CcccHHHHHHhccCCccccHHHHHHHH
Q 007255          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV--PL-D-ANVDLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       170 n~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~--~~-~-~~~~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      |+...+++++++  || ..+.+++++.++...+++..+...  .. . .+..+..++..+.|. .+.+.+++..+
T Consensus       130 n~~~~l~~aL~S--R~-~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd-~R~aln~Le~~  200 (413)
T PRK13342        130 NPSFEVNPALLS--RA-QVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGD-ARRALNLLELA  200 (413)
T ss_pred             ChhhhccHHHhc--cc-eeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCC-HHHHHHHHHHH
Confidence            334588999998  88 589999999999999999876542  11 1 122366777766543 34444444444

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.59  E-value=6.3e-14  Score=150.46  Aligned_cols=189  Identities=20%  Similarity=0.241  Sum_probs=134.1

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc--------------
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--------------   80 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~--------------   80 (611)
                      ...|++++|++.+++.|...+..            .+.+..+||+||+|||||++|+.+|+.+++.              
T Consensus        12 P~~f~diiGq~~~v~~L~~~i~~------------~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC   79 (546)
T PRK14957         12 PQSFAEVAGQQHALNSLVHALET------------QKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENC   79 (546)
T ss_pred             cCcHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHH
Confidence            36789999999999999888753            1234568999999999999999999988642              


Q ss_pred             ----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHH
Q 007255           81 ----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (611)
Q Consensus        81 ----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l  150 (611)
                                ++.+++..      ......++.+.+.+...+..++..|++|||+|.|..          ..++.|+..+
T Consensus        80 ~~i~~~~~~dlieidaas------~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~----------~a~naLLK~L  143 (546)
T PRK14957         80 VAINNNSFIDLIEIDAAS------RTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSK----------QSFNALLKTL  143 (546)
T ss_pred             HHHhcCCCCceEEeeccc------ccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccH----------HHHHHHHHHH
Confidence                      22222110      011234455655555444456677999999998843          5678899999


Q ss_pred             hcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCc
Q 007255          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYV  229 (611)
Q Consensus       151 ~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~  229 (611)
                      ++.      ++.+.+|.+|+.+..+.+.+++  |+ ..++|.+++.++....++..+...+...+ ..+..++..++| +
T Consensus       144 Eep------p~~v~fIL~Ttd~~kil~tI~S--Rc-~~~~f~~Ls~~eI~~~L~~il~~egi~~e~~Al~~Ia~~s~G-d  213 (546)
T PRK14957        144 EEP------PEYVKFILATTDYHKIPVTILS--RC-IQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAKG-S  213 (546)
T ss_pred             hcC------CCCceEEEEECChhhhhhhHHH--he-eeEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-C
Confidence            873      3356677777778888888988  88 58999999999999999887776554433 236677776654 3


Q ss_pred             cccHHHHHHHHH
Q 007255          230 GADLEALCREAT  241 (611)
Q Consensus       230 ~~dl~~l~~~a~  241 (611)
                      .+++.++++.+.
T Consensus       214 lR~alnlLek~i  225 (546)
T PRK14957        214 LRDALSLLDQAI  225 (546)
T ss_pred             HHHHHHHHHHHH
Confidence            455555555544

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=99.59  E-value=8.4e-14  Score=131.91  Aligned_cols=188  Identities=24%  Similarity=0.333  Sum_probs=139.3

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELY  361 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~  361 (611)
                      ..+.+++++|.+..|+.|.+.....+.        | .|.+++||+|++|||||++++++.++.   |..++.+...++.
T Consensus        22 ~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~--------G-~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~   92 (249)
T PF05673_consen   22 DPIRLDDLIGIERQKEALIENTEQFLQ--------G-LPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLG   92 (249)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHHc--------C-CCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhc
Confidence            467899999999999999877654332        3 577899999999999999999999987   7788888887775


Q ss_pred             cccccchHHHHHHHHHHHHhc-CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC--CCCCCeEEEEecCC
Q 007255          362 SMYVGESEALLRNTFQRARLA-APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL--EQAKGILVLAATNR  438 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~--~~~~~~~vI~~tn~  438 (611)
                      .         +..++...+.. .+-|||+||+-             .+..+.-.+.|-..|||.  ..++++++.+|+|+
T Consensus        93 ~---------l~~l~~~l~~~~~kFIlf~DDLs-------------Fe~~d~~yk~LKs~LeGgle~~P~NvliyATSNR  150 (249)
T PF05673_consen   93 D---------LPELLDLLRDRPYKFILFCDDLS-------------FEEGDTEYKALKSVLEGGLEARPDNVLIYATSNR  150 (249)
T ss_pred             c---------HHHHHHHHhcCCCCEEEEecCCC-------------CCCCcHHHHHHHHHhcCccccCCCcEEEEEecch
Confidence            4         66666666633 34499999863             122234457777778874  46778999999997


Q ss_pred             Ccccch-----------------------hccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCc-ccHH----HHHH
Q 007255          439 PHAIDA-----------------------ALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDD-VDLR----SIAE  490 (611)
Q Consensus       439 ~~~ld~-----------------------al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~-~~~~----~la~  490 (611)
                      .+.+..                       +|..  ||...|.|..|+.++-.+|++.++..+.+.-+ .++.    ..|.
T Consensus       151 RHLv~E~~~d~~~~~~~eih~~d~~eEklSLsD--RFGL~l~F~~~~q~~YL~IV~~~~~~~g~~~~~e~l~~~Al~wa~  228 (249)
T PF05673_consen  151 RHLVPESFSDREDIQDDEIHPSDTIEEKLSLSD--RFGLWLSFYPPDQEEYLAIVRHYAERYGLELDEEELRQEALQWAL  228 (249)
T ss_pred             hhccchhhhhccCCCccccCcchHHHHHHhHHH--hCCcEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            553322                       2222  99999999999999999999999987776644 3333    2334


Q ss_pred             hCCCCCHHHHHHHHH
Q 007255          491 ETELFTGAELEGLCR  505 (611)
Q Consensus       491 ~~~g~s~~~i~~~~~  505 (611)
                      ...|.||+-..+.+.
T Consensus       229 ~rg~RSGRtA~QF~~  243 (249)
T PF05673_consen  229 RRGGRSGRTARQFID  243 (249)
T ss_pred             HcCCCCHHHHHHHHH
Confidence            445778887777665

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.58  E-value=5.2e-14  Score=145.97  Aligned_cols=223  Identities=25%  Similarity=0.289  Sum_probs=144.7

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHH-hh---cCC-CCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc-cc
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAF-SR---LGI-SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MY  364 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~-~~---~~~-~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~-~~  364 (611)
                      -|+|++++++.+..++....+..... ..   -++ ....++||+||||||||++|+++|..++.+|..++++.+.. .|
T Consensus        78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L~~~gy  157 (413)
T TIGR00382        78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGY  157 (413)
T ss_pred             eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhcccccc
Confidence            37899999999987763221111100 00   001 12368999999999999999999999999999999888753 57


Q ss_pred             ccch-HHHHHHHHHHH----HhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC-----------CC
Q 007255          365 VGES-EALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ-----------AK  428 (611)
Q Consensus       365 ~g~~-~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~-----------~~  428 (611)
                      +|.. +..+...+..+    ....++||||||+|.+..++...+.........+++.||+.|+|...           ..
T Consensus       158 vG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~gr~~~~~  237 (413)
T TIGR00382       158 VGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGRKHPYQ  237 (413)
T ss_pred             ccccHHHHHHHHHHhCcccHHhcccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecccCCCccccCC
Confidence            8874 34444444322    33467799999999998765433322222234688999999986421           12


Q ss_pred             CeEEEEecCCC---------------------------c-----------------------ccchhccCCCCccceeec
Q 007255          429 GILVLAATNRP---------------------------H-----------------------AIDAALMRPGRFDLVLYV  458 (611)
Q Consensus       429 ~~~vI~~tn~~---------------------------~-----------------------~ld~al~r~gRf~~~i~~  458 (611)
                      .+++|.|+|-.                           +                       -+.|+|+  ||++.++.|
T Consensus       238 ~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEfl--gRld~Iv~f  315 (413)
T TIGR00382       238 EFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFI--GRLPVIATL  315 (413)
T ss_pred             CeEEEEcCCceeeecccccChHHHHHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHh--CCCCeEeec
Confidence            46777777750                           0                       0223344  599999999


Q ss_pred             CCCCHHHHHHHHHHH----hcCC-------CC--C-CcccHHHHHHhC--CCCCHHHHHHHHHHHHHHHHHhh
Q 007255          459 PPPDLEARHEILRVH----TRNM-------KV--G-DDVDLRSIAEET--ELFTGAELEGLCREAGIVALRED  515 (611)
Q Consensus       459 ~~p~~~~r~~il~~~----~~~~-------~~--~-~~~~~~~la~~~--~g~s~~~i~~~~~~a~~~a~~~~  515 (611)
                      .+.+.++..+|+...    .+++       .+  . ++..++.+++..  ..+-.+.++.+++......+-+.
T Consensus       316 ~pL~~~~L~~Il~~~~n~l~kq~~~~l~~~gi~L~~t~~a~~~Ia~~~~~~~~GAR~Lr~iie~~l~~~m~e~  388 (413)
T TIGR00382       316 EKLDEEALIAILTKPKNALVKQYQALFKMDNVELDFEEEALKAIAKKALERKTGARGLRSIVEGLLLDVMFDL  388 (413)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEECHHHHHHHHHhCCCCCCCchHHHHHHHHhhHHHHhhC
Confidence            999999999998742    2211       11  1 233366777653  35667788888877666655543

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.58  E-value=2.5e-14  Score=157.51  Aligned_cols=210  Identities=17%  Similarity=0.210  Sum_probs=144.3

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeec------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS------  356 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~------  356 (611)
                      .+.+.+|++|+|++.+++.|...+..            .+.++.+||+||+|+|||++|+++|+.+++....-.      
T Consensus         9 kyRP~~~~eiiGq~~~~~~L~~~i~~------------~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~   76 (585)
T PRK14950          9 KWRSQTFAELVGQEHVVQTLRNAIAE------------GRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGT   76 (585)
T ss_pred             HhCCCCHHHhcCCHHHHHHHHHHHHh------------CCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence            34567899999999999999888763            234567899999999999999999999865321100      


Q ss_pred             ---c--------hhhcc--ccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHH
Q 007255          357 ---G--------AELYS--MYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLT  419 (611)
Q Consensus       357 ---~--------~~~~~--~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~  419 (611)
                         +        .++..  .........++.+.+.+..    ....|++|||+|.+.              ....+.|++
T Consensus        77 c~~c~~i~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~--------------~~a~naLLk  142 (585)
T PRK14950         77 CEMCRAIAEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLS--------------TAAFNALLK  142 (585)
T ss_pred             CHHHHHHhcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCC--------------HHHHHHHHH
Confidence               0        01000  0001112334555444332    223599999999872              345788999


Q ss_pred             HhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHH
Q 007255          420 EMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGA  498 (611)
Q Consensus       420 ~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~  498 (611)
                      .|+  ++...++||++|+.++.+.+.+.+  |+. .+.|+.++..+...+++..+...++. ++..+..++..+.| +.+
T Consensus       143 ~LE--epp~~tv~Il~t~~~~kll~tI~S--R~~-~i~f~~l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~G-dlr  216 (585)
T PRK14950        143 TLE--EPPPHAIFILATTEVHKVPATILS--RCQ-RFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATG-SMR  216 (585)
T ss_pred             HHh--cCCCCeEEEEEeCChhhhhHHHHh--ccc-eeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHH
Confidence            998  455678888888888888888877  776 78899999999998888776655543 34457888888887 778


Q ss_pred             HHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          499 ELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       499 ~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      ++.+.++....+      ....|+.+++...+
T Consensus       217 ~al~~LekL~~y------~~~~It~e~V~~ll  242 (585)
T PRK14950        217 DAENLLQQLATT------YGGEISLSQVQSLL  242 (585)
T ss_pred             HHHHHHHHHHHh------cCCCCCHHHHHHHh
Confidence            887777765432      12346666655544

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.58  E-value=6.2e-14  Score=152.41  Aligned_cols=188  Identities=19%  Similarity=0.253  Sum_probs=136.7

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---------------   80 (611)
                      +.|++++|++.+++.|..++..            .+.+..+||+||+|||||++++.+|+.+++.               
T Consensus        13 ~~f~dviGQe~vv~~L~~~l~~------------~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~   80 (618)
T PRK14951         13 RSFSEMVGQEHVVQALTNALTQ------------QRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGV   80 (618)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCc
Confidence            6789999999999999998754            1244667999999999999999999998752               


Q ss_pred             --------------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHH
Q 007255           81 --------------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQL  146 (611)
Q Consensus        81 --------------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~l  146 (611)
                                    ++.+++.+      ......++++.+.+...+..++..|++|||+|.|..          ...+.|
T Consensus        81 C~~C~~i~~g~h~D~~eldaas------~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~----------~a~NaL  144 (618)
T PRK14951         81 CQACRDIDSGRFVDYTELDAAS------NRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTN----------TAFNAM  144 (618)
T ss_pred             cHHHHHHHcCCCCceeecCccc------ccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCH----------HHHHHH
Confidence                          11111110      112334666666655444445667999999998854          457788


Q ss_pred             HHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhc
Q 007255          147 FTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSC  225 (611)
Q Consensus       147 l~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~  225 (611)
                      +..+++      .+.++.+|.+|+.++.+.+.+++  |+ ..+.|..++.++....++..+...+...+ ..+..++..+
T Consensus       145 LKtLEE------PP~~~~fIL~Ttd~~kil~TIlS--Rc-~~~~f~~Ls~eei~~~L~~i~~~egi~ie~~AL~~La~~s  215 (618)
T PRK14951        145 LKTLEE------PPEYLKFVLATTDPQKVPVTVLS--RC-LQFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLARAA  215 (618)
T ss_pred             HHhccc------CCCCeEEEEEECCchhhhHHHHH--hc-eeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Confidence            888886      33457778788888889989998  87 58999999999999999988876655433 3477888877


Q ss_pred             cCCccccHHHHHHHHH
Q 007255          226 NGYVGADLEALCREAT  241 (611)
Q Consensus       226 ~g~~~~dl~~l~~~a~  241 (611)
                      +| +.+++.++++.+.
T Consensus       216 ~G-slR~al~lLdq~i  230 (618)
T PRK14951        216 RG-SMRDALSLTDQAI  230 (618)
T ss_pred             CC-CHHHHHHHHHHHH
Confidence            76 4555556655544

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.58  E-value=3.1e-14  Score=145.14  Aligned_cols=177  Identities=27%  Similarity=0.372  Sum_probs=128.0

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhc-CCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc-cccc-c
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRL-GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVG-E  367 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~-~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~-~~~g-~  367 (611)
                      -|+|++++++.+..++............+ .-.+|+++||+||||||||++|+++|..++.+|+.+++..+.. .|+| +
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~~e~g~vG~d   92 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD   92 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecceeecCCcccCC
Confidence            47899999999987765321111110000 1224589999999999999999999999999999999988874 6877 5


Q ss_pred             hHHHHHHHHHHHH-------------------------------------------------------------------
Q 007255          368 SEALLRNTFQRAR-------------------------------------------------------------------  380 (611)
Q Consensus       368 ~~~~~~~~~~~a~-------------------------------------------------------------------  380 (611)
                      .+..++.+|..+.                                                                   
T Consensus        93 vE~i~r~l~e~A~~~i~~d~i~~~r~~a~~~ae~riv~~Ll~~~~~~~~~~~~~~~~~~~r~~~~~~l~~g~ldd~~iei  172 (441)
T TIGR00390        93 VESMVRDLTDAAVKLVKEEAIEKVRDRAEELAEERIVDVLLPPAKNQWGQTEQQQEPESAREAFRKKLREGELDDKEIEI  172 (441)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcCCccccccccccccchHHHHHHHHHHHhcCCccCcEEEE
Confidence            5666666665540                                                                   


Q ss_pred             ------------------------------------------------------------------------hcCCcEEE
Q 007255          381 ------------------------------------------------------------------------LAAPSIIF  388 (611)
Q Consensus       381 ------------------------------------------------------------------------~~~p~il~  388 (611)
                                                                                              ..+..|||
T Consensus       173 ~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ea~~~l~~~e~~~lid~~~v~~~a~~~~e~~GIVf  252 (441)
T TIGR00390       173 DVSAKMPSGIEIMAPPGMEEMTMQLQSLFQNLGGQKKKKRKLKIKDAKKALIAEEAAKLVDPEEIKQEAIDAVEQSGIIF  252 (441)
T ss_pred             eecCCCCCccccCCCcchhHHHhhHHHHHHhhcCCCCceEEeEHHHHHHHHHHHHHHhccChHHHHHHHHHHHHcCCEEE
Confidence                                                                                    11334999


Q ss_pred             EcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--------CCCCeEEEEecC----CCcccchhccCCCCcccee
Q 007255          389 FDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--------QAKGILVLAATN----RPHAIDAALMRPGRFDLVL  456 (611)
Q Consensus       389 iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~~~~~vI~~tn----~~~~ld~al~r~gRf~~~i  456 (611)
                      |||||+|+.+..+  ...+....-++..||+.++|-.        ..++++||++..    .|+++-|.|.  |||..++
T Consensus       253 iDEiDKIa~~~~~--~~~DvS~eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~~GAF~~~kp~DlIPEl~--GR~Pi~v  328 (441)
T TIGR00390       253 IDEIDKIAKKGES--SGADVSREGVQRDLLPIVEGSTVNTKYGMVKTDHILFIAAGAFQLAKPSDLIPELQ--GRFPIRV  328 (441)
T ss_pred             EEchhhhcccCCC--CCCCCCccchhccccccccCceeeecceeEECCceeEEecCCcCCCChhhccHHHh--CccceEE
Confidence            9999999876421  1122223458899999998732        245789998764    4666666666  5999999


Q ss_pred             ecCCCCHHHHHHHHH
Q 007255          457 YVPPPDLEARHEILR  471 (611)
Q Consensus       457 ~~~~p~~~~r~~il~  471 (611)
                      .+..++.++-..||.
T Consensus       329 ~L~~L~~edL~rILt  343 (441)
T TIGR00390       329 ELQALTTDDFERILT  343 (441)
T ss_pred             ECCCCCHHHHHHHhc
Confidence            999999999999984

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.58  E-value=8.6e-14  Score=150.80  Aligned_cols=188  Identities=14%  Similarity=0.184  Sum_probs=133.8

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---------------   80 (611)
                      ..|++|+|++.+++.|..++..            -+.+..+||+||+|||||++++.+|+.+++.               
T Consensus        10 ~~f~eivGq~~i~~~L~~~i~~------------~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~   77 (584)
T PRK14952         10 ATFAEVVGQEHVTEPLSSALDA------------GRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCV   77 (584)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHH
Confidence            6789999999999999998754            1244558999999999999999999998752               


Q ss_pred             -----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHH
Q 007255           81 -----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (611)
Q Consensus        81 -----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~  149 (611)
                                 ++.+++.+      ......++++.+.+...+..++..|++|||+|.|..          ..++.|+..
T Consensus        78 ~i~~~~~~~~dvieidaas------~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~----------~A~NALLK~  141 (584)
T PRK14952         78 ALAPNGPGSIDVVELDAAS------HGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTT----------AGFNALLKI  141 (584)
T ss_pred             HhhcccCCCceEEEecccc------ccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCH----------HHHHHHHHH
Confidence                       11111110      112344555555554444445667999999998843          467889999


Q ss_pred             HhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcc-cHHHHHHhccCC
Q 007255          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGY  228 (611)
Q Consensus       150 l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~-~~~~la~~~~g~  228 (611)
                      |+.      .+.++++|.+|+.++.+.+.+++  |+ ..+.|..++.++..+.+...+...+...+. .+..++..+.| 
T Consensus       142 LEE------pp~~~~fIL~tte~~kll~TI~S--Rc-~~~~F~~l~~~~i~~~L~~i~~~egi~i~~~al~~Ia~~s~G-  211 (584)
T PRK14952        142 VEE------PPEHLIFIFATTEPEKVLPTIRS--RT-HHYPFRLLPPRTMRALIARICEQEGVVVDDAVYPLVIRAGGG-  211 (584)
T ss_pred             Hhc------CCCCeEEEEEeCChHhhHHHHHH--hc-eEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-
Confidence            987      33467888888888999999998  86 589999999999999999888766544332 35556555443 


Q ss_pred             ccccHHHHHHHHH
Q 007255          229 VGADLEALCREAT  241 (611)
Q Consensus       229 ~~~dl~~l~~~a~  241 (611)
                      +.+++.++++...
T Consensus       212 dlR~aln~Ldql~  224 (584)
T PRK14952        212 SPRDTLSVLDQLL  224 (584)
T ss_pred             CHHHHHHHHHHHH
Confidence            4555555555543

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.58  E-value=8e-14  Score=151.99  Aligned_cols=189  Identities=21%  Similarity=0.259  Sum_probs=139.1

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc--------------
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--------------   80 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~--------------   80 (611)
                      .+.|++++|++.+++.|..++..            .+.+..+||+||+|||||++++.+|+.+++.              
T Consensus        12 P~~f~~viGq~~v~~~L~~~i~~------------~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C   79 (559)
T PRK05563         12 PQTFEDVVGQEHITKTLKNAIKQ------------GKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEIC   79 (559)
T ss_pred             CCcHHhccCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHH
Confidence            36789999999999999998754            1245678999999999999999999988642              


Q ss_pred             ----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHH
Q 007255           81 ----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (611)
Q Consensus        81 ----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l  150 (611)
                                ++.+++.      .+.....++.+.+.+...+..++..|++|||+|.|..          ...+.|+..+
T Consensus        80 ~~i~~g~~~dv~eidaa------s~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~----------~a~naLLKtL  143 (559)
T PRK05563         80 KAITNGSLMDVIEIDAA------SNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLST----------GAFNALLKTL  143 (559)
T ss_pred             HHHhcCCCCCeEEeecc------ccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCH----------HHHHHHHHHh
Confidence                      2222221      1123455777777766655566778999999998843          4577888888


Q ss_pred             hcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCc
Q 007255          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYV  229 (611)
Q Consensus       151 ~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~  229 (611)
                      +..      +.++++|.+|+.++.+.+.+++  |+. .+.|++|+.++...+++..+...+...+ ..+..++..+.| .
T Consensus       144 Eep------p~~~ifIlatt~~~ki~~tI~S--Rc~-~~~f~~~~~~ei~~~L~~i~~~egi~i~~~al~~ia~~s~G-~  213 (559)
T PRK05563        144 EEP------PAHVIFILATTEPHKIPATILS--RCQ-RFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEG-G  213 (559)
T ss_pred             cCC------CCCeEEEEEeCChhhCcHHHHh--Hhe-EEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-C
Confidence            762      3457777778888999999998  885 7899999999999999988876654433 346777777765 4


Q ss_pred             cccHHHHHHHHH
Q 007255          230 GADLEALCREAT  241 (611)
Q Consensus       230 ~~dl~~l~~~a~  241 (611)
                      .+++.++++.+.
T Consensus       214 ~R~al~~Ldq~~  225 (559)
T PRK05563        214 MRDALSILDQAI  225 (559)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555543

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.58  E-value=4.4e-14  Score=149.59  Aligned_cols=206  Identities=16%  Similarity=0.234  Sum_probs=135.8

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCC
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRG  400 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~  400 (611)
                      .++++||||+|+|||+|++++++++   +..+++++..++...+.......-...|+... ..+++|+|||++.+.++. 
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~~-~~~dvLiIDDiq~l~~k~-  218 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHLVSAIRSGEMQRFRQFY-RNVDALFIEDIEVFSGKG-  218 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHHHHHHhcchHHHHHHHc-ccCCEEEEcchhhhcCCh-
Confidence            3579999999999999999999986   67888888877765433221111112233322 356799999999885331 


Q ss_pred             CCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc---cchhccCCCCcc--ceeecCCCCHHHHHHHHHHHhc
Q 007255          401 GSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA---IDAALMRPGRFD--LVLYVPPPDLEARHEILRVHTR  475 (611)
Q Consensus       401 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~---ld~al~r~gRf~--~~i~~~~p~~~~r~~il~~~~~  475 (611)
                                 .....|...++.+...++.+++.+++.|..   +++.+.+  ||.  ..+.+++|+.++|..|++..+.
T Consensus       219 -----------~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~S--R~~~Gl~~~l~~pd~e~r~~iL~~k~~  285 (445)
T PRK12422        219 -----------ATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLIS--RFEWGIAIPLHPLTKEGLRSFLERKAE  285 (445)
T ss_pred             -----------hhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHh--hhcCCeEEecCCCCHHHHHHHHHHHHH
Confidence                       112233333322223345566655555654   5678887  885  7899999999999999998776


Q ss_pred             CCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhc---CC--CCCHHHHHHH
Q 007255          476 NMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSL---KP--ALTKEEIDSY  545 (611)
Q Consensus       476 ~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~---~~--~~~~~~~~~~  545 (611)
                      ..++. ++.-++.++....+ +.+++.+++...+.......+...+++.+....++...   .+  .++.+.|...
T Consensus       286 ~~~~~l~~evl~~la~~~~~-dir~L~g~l~~l~~~~a~~~~~~~~i~~~~~~~~l~~~~~~~~~~~~t~~~I~~~  360 (445)
T PRK12422        286 ALSIRIEETALDFLIEALSS-NVKSLLHALTLLAKRVAYKKLSHQLLYVDDIKALLHDVLEAAESVRLTPSKIIRA  360 (445)
T ss_pred             HcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhhcccCCCCCHHHHHHH
Confidence            65544 33446778887775 67788887777653222333445779999999998754   22  3566665543

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.57  E-value=1.2e-13  Score=148.18  Aligned_cols=202  Identities=23%  Similarity=0.300  Sum_probs=137.1

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccC
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR  399 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~  399 (611)
                      +.++|||++|+|||+|++|+|+++     +..+++++..++...+...........|... -..+++|+|||++.+.++.
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~~~~~~f~~~-y~~~DLLlIDDIq~l~gke  393 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRDGKGDSFRRR-YREMDILLVDDIQFLEDKE  393 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHhccHHHHHHH-hhcCCEEEEehhccccCCH
Confidence            459999999999999999999987     5688999998887665443222111223322 2356799999999885432


Q ss_pred             CCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCc---ccchhccCCCCcc--ceeecCCCCHHHHHHHHHHHh
Q 007255          400 GGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH---AIDAALMRPGRFD--LVLYVPPPDLEARHEILRVHT  474 (611)
Q Consensus       400 ~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~---~ld~al~r~gRf~--~~i~~~~p~~~~r~~il~~~~  474 (611)
                                  .....|+..++.+...++.+||.+...|.   .+++.|.+  ||.  .++.+..||.+.|..||+..+
T Consensus       394 ------------~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~S--Rf~~GLvv~I~~PD~EtR~aIL~kka  459 (617)
T PRK14086        394 ------------STQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRN--RFEWGLITDVQPPELETRIAILRKKA  459 (617)
T ss_pred             ------------HHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHh--hhhcCceEEcCCCCHHHHHHHHHHHH
Confidence                        11223333333333444556664444454   36778887  875  778999999999999999877


Q ss_pred             cCCCCCC-cccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCC-----CCCHHHHHHH
Q 007255          475 RNMKVGD-DVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKP-----ALTKEEIDSY  545 (611)
Q Consensus       475 ~~~~~~~-~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~-----~~~~~~~~~~  545 (611)
                      ....+.- +.-++.|+....+ +.++++.++......+...   .++++......++..+.+     .++.+.|...
T Consensus       460 ~~r~l~l~~eVi~yLa~r~~r-nvR~LegaL~rL~a~a~~~---~~~itl~la~~vL~~~~~~~~~~~it~d~I~~~  532 (617)
T PRK14086        460 VQEQLNAPPEVLEFIASRISR-NIRELEGALIRVTAFASLN---RQPVDLGLTEIVLRDLIPEDSAPEITAAAIMAA  532 (617)
T ss_pred             HhcCCCCCHHHHHHHHHhccC-CHHHHHHHHHHHHHHHHhh---CCCCCHHHHHHHHHHhhccccCCcCCHHHHHHH
Confidence            7665553 3447888888776 7889999988876665543   366888888888876522     3555555443

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.57  E-value=3.5e-14  Score=144.88  Aligned_cols=177  Identities=26%  Similarity=0.370  Sum_probs=129.0

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcC-CCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc-cccc-c
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLG-ISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVG-E  367 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~-~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~-~~~g-~  367 (611)
                      .|+|++.+++.+..++.....+........ -..++++||+||||||||++|+++|..++.+|+.++++.+.. .|+| +
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~d   95 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD   95 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccCC
Confidence            388999999999887753211111000000 012578999999999999999999999999999999998885 6888 4


Q ss_pred             hHHHHHHHHHHHH-------------------------------------------------------------------
Q 007255          368 SEALLRNTFQRAR-------------------------------------------------------------------  380 (611)
Q Consensus       368 ~~~~~~~~~~~a~-------------------------------------------------------------------  380 (611)
                      .+..++.+|..|.                                                                   
T Consensus        96 ~e~~ir~L~~~A~~~~~~~~~~~~~~~a~~~~e~ri~~~l~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~g~ldd~~iei  175 (443)
T PRK05201         96 VESIIRDLVEIAVKMVREEKREKVREKAEEAAEERILDALLPPAKNNWGEEEEKEEISATRQKFRKKLREGELDDKEIEI  175 (443)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhCCCccCCccccccchhhhHHHHHHHHHHHcCCcCCcEEEE
Confidence            4666666666651                                                                   


Q ss_pred             -----------------------------------------------------------------------hcCCcEEEE
Q 007255          381 -----------------------------------------------------------------------LAAPSIIFF  389 (611)
Q Consensus       381 -----------------------------------------------------------------------~~~p~il~i  389 (611)
                                                                                             ..+..||||
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~eA~~~l~~~e~~~lid~~~v~~~ai~~ae~~GIVfi  255 (443)
T PRK05201        176 EVAEAAPMMEIMGPPGMEEMTIQLQDMFGNLGPKKKKKRKLKVKEARKILIEEEAAKLIDMEEIKQEAIERVEQNGIVFI  255 (443)
T ss_pred             EecCCCCcccCCCCcchhHHHHHHHHHHHhhCCCCCceEEeEHHHHHHHHHHHHHHhccChHHHHHHHHHHHHcCCEEEE
Confidence                                                                                   012349999


Q ss_pred             cccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--------CCCCeEEEEecC----CCcccchhccCCCCccceee
Q 007255          390 DEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--------QAKGILVLAATN----RPHAIDAALMRPGRFDLVLY  457 (611)
Q Consensus       390 Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~~~~~vI~~tn----~~~~ld~al~r~gRf~~~i~  457 (611)
                      ||||.|+.+.+.  +..+....-++..||+.++|-.        ..++++||++..    .|+++-|.|.  |||+.++.
T Consensus       256 DEiDKIa~~~~~--~~~DvS~eGVQ~~LLki~EG~~v~~k~~~i~T~~ILFI~~GAF~~~kp~DlIPEl~--GR~Pi~v~  331 (443)
T PRK05201        256 DEIDKIAARGGS--SGPDVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILFIASGAFHVSKPSDLIPELQ--GRFPIRVE  331 (443)
T ss_pred             EcchhhcccCCC--CCCCCCccchhcccccccccceeeecceeEECCceeEEecCCcCCCChhhccHHHh--CccceEEE
Confidence            999999976432  1222223458899999998732        346789997753    4667777777  49999999


Q ss_pred             cCCCCHHHHHHHHH
Q 007255          458 VPPPDLEARHEILR  471 (611)
Q Consensus       458 ~~~p~~~~r~~il~  471 (611)
                      +..++.++..+||.
T Consensus       332 L~~L~~~dL~~ILt  345 (443)
T PRK05201        332 LDALTEEDFVRILT  345 (443)
T ss_pred             CCCCCHHHHHHHhc
Confidence            99999999999984

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.57  E-value=4.8e-14  Score=158.71  Aligned_cols=219  Identities=18%  Similarity=0.240  Sum_probs=146.7

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc--------
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS--------  362 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~--------  362 (611)
                      +..|++.+|+.+.+++.....       .+......++|+||||||||++++.+|..++.+++.++.+....        
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~-------~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~~  395 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSR-------VNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHR  395 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHh-------cccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccch
Confidence            488999999999988763211       11123346899999999999999999999999998887665432        


Q ss_pred             -ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC-------------CCCC
Q 007255          363 -MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL-------------EQAK  428 (611)
Q Consensus       363 -~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~-------------~~~~  428 (611)
                       .|.|...+.+.+.+..+....| |++|||+|.+.....          ....+.|+..||.-             ..-+
T Consensus       396 ~~~~g~~~G~~~~~l~~~~~~~~-villDEidk~~~~~~----------g~~~~aLlevld~~~~~~~~d~~~~~~~dls  464 (784)
T PRK10787        396 RTYIGSMPGKLIQKMAKVGVKNP-LFLLDEIDKMSSDMR----------GDPASALLEVLDPEQNVAFSDHYLEVDYDLS  464 (784)
T ss_pred             hccCCCCCcHHHHHHHhcCCCCC-EEEEEChhhcccccC----------CCHHHHHHHHhccccEEEEecccccccccCC
Confidence             3666666666666665554555 999999998853311          12346777777631             1226


Q ss_pred             CeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcC-----CCCC------CcccHHHHHHhC-CCCC
Q 007255          429 GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRN-----MKVG------DDVDLRSIAEET-ELFT  496 (611)
Q Consensus       429 ~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~-----~~~~------~~~~~~~la~~~-~g~s  496 (611)
                      +++||+|+|.. .++++|+.  ||+ +|.++.++.++..+|.+.++..     ....      ++..+..+++.+ ..+-
T Consensus       465 ~v~~i~TaN~~-~i~~aLl~--R~~-ii~~~~~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~ai~~ii~~yt~e~G  540 (784)
T PRK10787        465 DVMFVATSNSM-NIPAPLLD--RME-VIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREAG  540 (784)
T ss_pred             ceEEEEcCCCC-CCCHHHhc--cee-eeecCCCCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHHHHHHHHHhCCcccC
Confidence            79999999887 59999998  996 8999999999999999877631     1111      122245555432 2334


Q ss_pred             HHHHHHHHHHHHHHHHHhhc-----ccccccHHHHHHHHh
Q 007255          497 GAELEGLCREAGIVALREDI-----SATAVRNRHFQTVKD  531 (611)
Q Consensus       497 ~~~i~~~~~~a~~~a~~~~~-----~~~~i~~~~~~~~l~  531 (611)
                      .+.++..+.......+.+.+     ....++..++...+-
T Consensus       541 aR~LeR~I~~i~r~~l~~~~~~~~~~~v~v~~~~~~~~lg  580 (784)
T PRK10787        541 VRSLEREISKLCRKAVKQLLLDKSLKHIEINGDNLHDYLG  580 (784)
T ss_pred             CcHHHHHHHHHHHHHHHHHHhcCCCceeeecHHHHHHHhC
Confidence            45666666655544444332     223566666666663

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.57  E-value=1.1e-13  Score=135.10  Aligned_cols=204  Identities=13%  Similarity=0.107  Sum_probs=126.2

Q ss_pred             Cccccccc-c-hhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC---CcEEeecchhh
Q 007255          286 KVTWEDIG-G-LRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE---ASFFSLSGAEL  360 (611)
Q Consensus       286 ~~~~~~i~-g-~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~---~~~~~~~~~~~  360 (611)
                      ..+|++.+ | ...+...+.+....             ....+++||||||||||++++++++++.   ..+.+++..+.
T Consensus        18 ~~~fd~f~~~~n~~a~~~l~~~~~~-------------~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~   84 (235)
T PRK08084         18 DETFASFYPGDNDSLLAALQNALRQ-------------EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKR   84 (235)
T ss_pred             cCCccccccCccHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHH
Confidence            34666655 3 45555555555432             2234799999999999999999998763   44555555442


Q ss_pred             ccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCC-eEEEEecCCC
Q 007255          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKG-ILVLAATNRP  439 (611)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~-~~vI~~tn~~  439 (611)
                      ...        ...+.+...  ..++|+|||++.+.++.         ...+.+-.+++.+   ...++ .+++.+++.|
T Consensus        85 ~~~--------~~~~~~~~~--~~dlliiDdi~~~~~~~---------~~~~~lf~l~n~~---~e~g~~~li~ts~~~p  142 (235)
T PRK08084         85 AWF--------VPEVLEGME--QLSLVCIDNIECIAGDE---------LWEMAIFDLYNRI---LESGRTRLLITGDRPP  142 (235)
T ss_pred             hhh--------hHHHHHHhh--hCCEEEEeChhhhcCCH---------HHHHHHHHHHHHH---HHcCCCeEEEeCCCCh
Confidence            211        112222222  12599999999884321         1122222333322   23444 3555455555


Q ss_pred             cc---cchhccCCCCcc--ceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 007255          440 HA---IDAALMRPGRFD--LVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALR  513 (611)
Q Consensus       440 ~~---ld~al~r~gRf~--~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~  513 (611)
                      ..   +.|.+.+  |+.  .++.+.+|+.+++.++++......++. ++.-++.|++..+| +.+.+..++......+..
T Consensus       143 ~~l~~~~~~L~S--Rl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~~l~~~v~~~L~~~~~~-d~r~l~~~l~~l~~~~l~  219 (235)
T PRK08084        143 RQLNLGLPDLAS--RLDWGQIYKLQPLSDEEKLQALQLRARLRGFELPEDVGRFLLKRLDR-EMRTLFMTLDQLDRASIT  219 (235)
T ss_pred             HHcCcccHHHHH--HHhCCceeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhhcC-CHHHHHHHHHHHHHHHHh
Confidence            55   5788888  885  799999999999999999755443333 34457899999987 788888888875433322


Q ss_pred             hhcccccccHHHHHHHH
Q 007255          514 EDISATAVRNRHFQTVK  530 (611)
Q Consensus       514 ~~~~~~~i~~~~~~~~l  530 (611)
                      .   .++||...+..++
T Consensus       220 ~---~~~it~~~~k~~l  233 (235)
T PRK08084        220 A---QRKLTIPFVKEIL  233 (235)
T ss_pred             c---CCCCCHHHHHHHH
Confidence            2   3557776666654

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.57  E-value=8.1e-14  Score=150.91  Aligned_cols=189  Identities=19%  Similarity=0.238  Sum_probs=136.4

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcE--------------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL--------------   81 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~--------------   81 (611)
                      +.|++|+|++.+++.|..++..            .+.+..+||+||+|+|||++|+.+|+.+++..              
T Consensus        13 ~~f~divGq~~v~~~L~~~i~~------------~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~   80 (527)
T PRK14969         13 KSFSELVGQEHVVRALTNALEQ------------QRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACL   80 (527)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHc------------CCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHH
Confidence            6789999999999999988754            12345689999999999999999999997531              


Q ss_pred             ----------EEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh
Q 007255           82 ----------TVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (611)
Q Consensus        82 ----------~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~  151 (611)
                                +.+++.      .......++.+.+.+...+..++..|++|||+|.|..          ..++.|+..++
T Consensus        81 ~i~~~~~~d~~ei~~~------~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~----------~a~naLLK~LE  144 (527)
T PRK14969         81 EIDSGRFVDLIEVDAA------SNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSK----------SAFNAMLKTLE  144 (527)
T ss_pred             HHhcCCCCceeEeecc------ccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCH----------HHHHHHHHHHh
Confidence                      111111      0122345666766665555556678999999998843          45778999998


Q ss_pred             cCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCcc
Q 007255          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVG  230 (611)
Q Consensus       152 ~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~  230 (611)
                      +.      +.++.+|.+|+.++.+.+.+++  |+ ..+.|..++.++....+...+...+...+ ..+..++..++|- .
T Consensus       145 ep------p~~~~fIL~t~d~~kil~tI~S--Rc-~~~~f~~l~~~~i~~~L~~il~~egi~~~~~al~~la~~s~Gs-l  214 (527)
T PRK14969        145 EP------PEHVKFILATTDPQKIPVTVLS--RC-LQFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLARAAAGS-M  214 (527)
T ss_pred             CC------CCCEEEEEEeCChhhCchhHHH--HH-HHHhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-H
Confidence            72      3357777788888888888988  87 48999999999999999887765554432 2367777776653 4


Q ss_pred             ccHHHHHHHHHH
Q 007255          231 ADLEALCREATM  242 (611)
Q Consensus       231 ~dl~~l~~~a~~  242 (611)
                      +++.++++.+..
T Consensus       215 r~al~lldqai~  226 (527)
T PRK14969        215 RDALSLLDQAIA  226 (527)
T ss_pred             HHHHHHHHHHHH
Confidence            556666665543

>PRK04195 replication factor C large subunit; Provisional

Probab=99.56  E-value=1.1e-13  Score=149.51  Aligned_cols=189  Identities=25%  Similarity=0.366  Sum_probs=133.5

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      +.+++|+|++++++.|..++....        .| .+++++||+||||||||++++++|++++..++.+++++...    
T Consensus        11 ~~l~dlvg~~~~~~~l~~~l~~~~--------~g-~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~----   77 (482)
T PRK04195         11 KTLSDVVGNEKAKEQLREWIESWL--------KG-KPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRT----   77 (482)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHHHh--------cC-CCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEccccccc----
Confidence            678999999999999999986522        11 23689999999999999999999999999999999876432    


Q ss_pred             chHHHHHHHHHHHHhh-hhc-CCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc
Q 007255           96 ESEKALREAFSQASSH-ALS-GKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD  173 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~-~~~-~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~  173 (611)
                        ...+..+...+... ... .++.||+|||+|.+....+      ...+..++..++..        +..+|++||.+.
T Consensus        78 --~~~i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~~~d------~~~~~aL~~~l~~~--------~~~iIli~n~~~  141 (482)
T PRK04195         78 --ADVIERVAGEAATSGSLFGARRKLILLDEVDGIHGNED------RGGARAILELIKKA--------KQPIILTANDPY  141 (482)
T ss_pred             --HHHHHHHHHHhhccCcccCCCCeEEEEecCcccccccc------hhHHHHHHHHHHcC--------CCCEEEeccCcc
Confidence              12233333333221 112 2577999999999865321      13456677777632        134666788888


Q ss_pred             cccH-HhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCccccHHHHHHHH
Q 007255          174 AIDP-ALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       174 ~l~~-~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      .+.+ .+++  |+ ..+.|++|+..++..+++..+...+... +..+..++..+.    +|++.+++..
T Consensus       142 ~~~~k~Lrs--r~-~~I~f~~~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~----GDlR~ain~L  203 (482)
T PRK04195        142 DPSLRELRN--AC-LMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSG----GDLRSAINDL  203 (482)
T ss_pred             ccchhhHhc--cc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC----CCHHHHHHHH
Confidence            7777 6765  65 5899999999999999998886655432 234777777665    4666555544

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.56  E-value=1.3e-13  Score=144.79  Aligned_cols=222  Identities=20%  Similarity=0.246  Sum_probs=146.0

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC---------CcEEeecch
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE---------ASFFSLSGA  358 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~---------~~~~~~~~~  358 (611)
                      ..+++.|.+...+.|...+...+.        + ..+.+++++||||||||++++++++.+.         ..++.+++.
T Consensus        13 ~p~~l~gRe~e~~~l~~~l~~~~~--------~-~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~   83 (365)
T TIGR02928        13 VPDRIVHRDEQIEELAKALRPILR--------G-SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQ   83 (365)
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHc--------C-CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECC
Confidence            345789999988888887763221        1 3345799999999999999999998762         467777765


Q ss_pred             hhccc----------c---------cc-chHHHHHHHHHHHHh-cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHH
Q 007255          359 ELYSM----------Y---------VG-ESEALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (611)
Q Consensus       359 ~~~~~----------~---------~g-~~~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~l  417 (611)
                      .....          .         .+ .....+..+++.... ..+.||+|||+|.+.+.           ...++..|
T Consensus        84 ~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~-----------~~~~L~~l  152 (365)
T TIGR02928        84 ILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGD-----------DDDLLYQL  152 (365)
T ss_pred             CCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccC-----------CcHHHHhH
Confidence            43221          1         01 112334555555433 44679999999999621           12345555


Q ss_pred             HHHhcCC-CCCCCeEEEEecCCCc---ccchhccCCCCcc-ceeecCCCCHHHHHHHHHHHhcC-C--CCCCcccHHH--
Q 007255          418 LTEMDGL-EQAKGILVLAATNRPH---AIDAALMRPGRFD-LVLYVPPPDLEARHEILRVHTRN-M--KVGDDVDLRS--  487 (611)
Q Consensus       418 l~~l~~~-~~~~~~~vI~~tn~~~---~ld~al~r~gRf~-~~i~~~~p~~~~r~~il~~~~~~-~--~~~~~~~~~~--  487 (611)
                      +...+.. .+..++.+|+++|.++   .+++.+.+  ||. ..+.|++++.++..+|++..++. .  ...++..++.  
T Consensus       153 ~~~~~~~~~~~~~v~lI~i~n~~~~~~~l~~~~~s--~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~  230 (365)
T TIGR02928       153 SRARSNGDLDNAKVGVIGISNDLKFRENLDPRVKS--SLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCA  230 (365)
T ss_pred             hccccccCCCCCeEEEEEEECCcchHhhcCHHHhc--cCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHH
Confidence            5442211 1336789999999886   47777777  775 67999999999999999977652 1  1122222333  


Q ss_pred             -HHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhcC
Q 007255          488 -IAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLK  534 (611)
Q Consensus       488 -la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~  534 (611)
                       ++..+.| ..+.+..+|+.|...|..+.  ...++.+|+..++..+.
T Consensus       231 ~~~~~~~G-d~R~al~~l~~a~~~a~~~~--~~~it~~~v~~a~~~~~  275 (365)
T TIGR02928       231 ALAAQEHG-DARKAIDLLRVAGEIAEREG--AERVTEDHVEKAQEKIE  275 (365)
T ss_pred             HHHHHhcC-CHHHHHHHHHHHHHHHHHcC--CCCCCHHHHHHHHHHHH
Confidence             4444456 46667778888887776553  34688888888876653

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.56  E-value=1.8e-13  Score=146.88  Aligned_cols=187  Identities=20%  Similarity=0.250  Sum_probs=132.0

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---------------   80 (611)
                      ..|++++|++.+++.|..++..            ...+..+||+||||||||++++++|+.+.+.               
T Consensus        11 ~~~~dvvGq~~v~~~L~~~i~~------------~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~   78 (504)
T PRK14963         11 ITFDEVVGQEHVKEVLLAALRQ------------GRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLA   78 (504)
T ss_pred             CCHHHhcChHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHH
Confidence            5679999999999999988754            1234567999999999999999999988541               


Q ss_pred             --------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhc
Q 007255           81 --------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS  152 (611)
Q Consensus        81 --------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~  152 (611)
                              ++.++++.      ......++++.+.+...+..+++.|++|||+|.+..          ..++.|+..++.
T Consensus        79 i~~~~h~dv~el~~~~------~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~----------~a~naLLk~LEe  142 (504)
T PRK14963         79 VRRGAHPDVLEIDAAS------NNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSK----------SAFNALLKTLEE  142 (504)
T ss_pred             HhcCCCCceEEecccc------cCCHHHHHHHHHHHhhccccCCCeEEEEECccccCH----------HHHHHHHHHHHh
Confidence                    23333221      112334555544444444445678999999987632          457788888876


Q ss_pred             CCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCccc
Q 007255          153 NKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGA  231 (611)
Q Consensus       153 ~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~~  231 (611)
                      .      ..++++|.+|+.+..+.+.+++  |+. .+.|.+|+.++....++..+...+...+ ..+..++..++|. .+
T Consensus       143 p------~~~t~~Il~t~~~~kl~~~I~S--Rc~-~~~f~~ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s~Gd-lR  212 (504)
T PRK14963        143 P------PEHVIFILATTEPEKMPPTILS--RTQ-HFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADGA-MR  212 (504)
T ss_pred             C------CCCEEEEEEcCChhhCChHHhc--ceE-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HH
Confidence            3      2246777778888899999998  875 8999999999999999998876655432 3477778777654 33


Q ss_pred             cHHHHHHHH
Q 007255          232 DLEALCREA  240 (611)
Q Consensus       232 dl~~l~~~a  240 (611)
                      ++.++++.+
T Consensus       213 ~aln~Lekl  221 (504)
T PRK14963        213 DAESLLERL  221 (504)
T ss_pred             HHHHHHHHH
Confidence            344444443

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.55  E-value=1.9e-13  Score=146.73  Aligned_cols=187  Identities=20%  Similarity=0.223  Sum_probs=133.8

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc--------------
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--------------   80 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~--------------   80 (611)
                      ...|++++|++.+++.|..++..            -+.+..+||+||+|+|||++|+.+|+.+.+.              
T Consensus        12 P~~F~dIIGQe~iv~~L~~aI~~------------~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sC   79 (605)
T PRK05896         12 PHNFKQIIGQELIKKILVNAILN------------NKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVC   79 (605)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHH
Confidence            36789999999999999887743            1345679999999999999999999998642              


Q ss_pred             ----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHH
Q 007255           81 ----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (611)
Q Consensus        81 ----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l  150 (611)
                                ++.+++..      ......++.+.+.+...+..++..|++|||+|.|..          ...+.|+..+
T Consensus        80 r~i~~~~h~DiieIdaas------~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~----------~A~NaLLKtL  143 (605)
T PRK05896         80 ESINTNQSVDIVELDAAS------NNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLST----------SAWNALLKTL  143 (605)
T ss_pred             HHHHcCCCCceEEecccc------ccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCH----------HHHHHHHHHH
Confidence                      12222111      112334666666655554455667999999998843          4567899999


Q ss_pred             hcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCc
Q 007255          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYV  229 (611)
Q Consensus       151 ~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~  229 (611)
                      +.      +++.+++|.+|+.++.+.+.+++  |+. .+.|++|+.++...+++..+...+.. .+..+..++..+.|. 
T Consensus       144 EE------Pp~~tvfIL~Tt~~~KLl~TI~S--Rcq-~ieF~~Ls~~eL~~~L~~il~kegi~Is~eal~~La~lS~Gd-  213 (605)
T PRK05896        144 EE------PPKHVVFIFATTEFQKIPLTIIS--RCQ-RYNFKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADLADGS-  213 (605)
T ss_pred             Hh------CCCcEEEEEECCChHhhhHHHHh--hhh-hcccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCc-
Confidence            86      33357778888888999999998  875 79999999999999999887665432 223467777777663 


Q ss_pred             cccHHHHHHH
Q 007255          230 GADLEALCRE  239 (611)
Q Consensus       230 ~~dl~~l~~~  239 (611)
                      .+++.++++.
T Consensus       214 lR~AlnlLek  223 (605)
T PRK05896        214 LRDGLSILDQ  223 (605)
T ss_pred             HHHHHHHHHH
Confidence            4444444444

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.55  E-value=2.1e-13  Score=149.18  Aligned_cols=192  Identities=20%  Similarity=0.286  Sum_probs=136.4

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE---ccc-----
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI---SPH-----   87 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v---~~~-----   87 (611)
                      ..|++|+|++.+++.|..++..            -+.+..+||+||+|+|||++|+.+|+.+.+.-...   .|.     
T Consensus        15 ~~f~dIiGQe~~v~~L~~aI~~------------~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~   82 (725)
T PRK07133         15 KTFDDIVGQDHIVQTLKNIIKS------------NKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIEN   82 (725)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHh
Confidence            5679999999999999998854            12456789999999999999999999986532100   000     


Q ss_pred             -----ccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCC
Q 007255           88 -----SVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSV  160 (611)
Q Consensus        88 -----~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  160 (611)
                           ++.  ..........++.+.+.+...+..++..|++|||+|.|..          ..++.|+..|+.      ++
T Consensus        83 ~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~----------~A~NALLKtLEE------PP  146 (725)
T PRK07133         83 VNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSK----------SAFNALLKTLEE------PP  146 (725)
T ss_pred             hcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCH----------HHHHHHHHHhhc------CC
Confidence                 000  0000112345777777776666666778999999998853          457889999986      33


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcc-cHHHHHHhccCCccccHHHHHHH
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCRE  239 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~-~~~~la~~~~g~~~~dl~~l~~~  239 (611)
                      ..+++|.+|+.++.+.+.+++  |+. .+.|.+++.++...+++..+...+...+. .+..++..+.|-. +++..++..
T Consensus       147 ~~tifILaTte~~KLl~TI~S--Rcq-~ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS~Gsl-R~AlslLek  222 (725)
T PRK07133        147 KHVIFILATTEVHKIPLTILS--RVQ-RFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSGSL-RDALSIAEQ  222 (725)
T ss_pred             CceEEEEEcCChhhhhHHHHh--hce-eEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCH-HHHHHHHHH
Confidence            467788888888999999998  885 89999999999999999877665544332 3667777776543 344444443

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.55  E-value=1.9e-13  Score=153.70  Aligned_cols=193  Identities=18%  Similarity=0.154  Sum_probs=133.2

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEE--------EEccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT--------VISPH   87 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~--------~v~~~   87 (611)
                      ..|++|+|++.+++.|...+..            -+.+..+||+||+|||||++++.+|+.+++.--        +-+|.
T Consensus        12 ~~f~eiiGqe~v~~~L~~~i~~------------~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~   79 (824)
T PRK07764         12 ATFAEVIGQEHVTEPLSTALDS------------GRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCV   79 (824)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHh------------CCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHH
Confidence            6789999999999999998753            123456899999999999999999999975210        00010


Q ss_pred             c----------cc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCC
Q 007255           88 S----------VH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP  155 (611)
Q Consensus        88 ~----------~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~  155 (611)
                      .          +.  +.........++++.+.+.......+..|+||||+|.|..          ..++.|++.|++.  
T Consensus        80 ~~~~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~----------~a~NaLLK~LEEp--  147 (824)
T PRK07764         80 ALAPGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTP----------QGFNALLKIVEEP--  147 (824)
T ss_pred             HHHcCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCH----------HHHHHHHHHHhCC--
Confidence            0          10  0000011334455444444333445677999999999854          5678899999973  


Q ss_pred             CCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCccccHH
Q 007255          156 SKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLE  234 (611)
Q Consensus       156 ~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~~dl~  234 (611)
                          ..+++||.+|+.++.|.+.|++  |+ ..+.|..++.++..++++..+...++..+ ..+..++..+.| +.+++.
T Consensus       148 ----P~~~~fIl~tt~~~kLl~TIrS--Rc-~~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgG-dlR~Al  219 (824)
T PRK07764        148 ----PEHLKFIFATTEPDKVIGTIRS--RT-HHYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGG-SVRDSL  219 (824)
T ss_pred             ----CCCeEEEEEeCChhhhhHHHHh--he-eEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHH
Confidence                3357777788888889999998  87 48999999999999999988876555433 235667776665 344454


Q ss_pred             HHHHHH
Q 007255          235 ALCREA  240 (611)
Q Consensus       235 ~l~~~a  240 (611)
                      +++++.
T Consensus       220 ~eLEKL  225 (824)
T PRK07764        220 SVLDQL  225 (824)
T ss_pred             HHHHHH
Confidence            555443

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.54  E-value=1.8e-13  Score=133.54  Aligned_cols=200  Identities=15%  Similarity=0.111  Sum_probs=132.0

Q ss_pred             Cccccccc--chhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhh
Q 007255          286 KVTWEDIG--GLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAEL  360 (611)
Q Consensus       286 ~~~~~~i~--g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~  360 (611)
                      +.+|+++.  +.+.+...+.++..            +.....+++|+||+|||||++|++++++.   +..++.+++.++
T Consensus        14 ~~~~d~f~~~~~~~~~~~l~~~~~------------~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~   81 (227)
T PRK08903         14 PPTFDNFVAGENAELVARLRELAA------------GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASP   81 (227)
T ss_pred             hhhhcccccCCcHHHHHHHHHHHh------------ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHh
Confidence            45677765  34555566666544            22445679999999999999999999876   667777777664


Q ss_pred             ccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCc
Q 007255          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH  440 (611)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~  440 (611)
                      ...            +  .....+++|+|||+|.+-.              .....|+..++.....+..++|.+++.+.
T Consensus        82 ~~~------------~--~~~~~~~~liiDdi~~l~~--------------~~~~~L~~~~~~~~~~~~~~vl~~~~~~~  133 (227)
T PRK08903         82 LLA------------F--DFDPEAELYAVDDVERLDD--------------AQQIALFNLFNRVRAHGQGALLVAGPAAP  133 (227)
T ss_pred             HHH------------H--hhcccCCEEEEeChhhcCc--------------hHHHHHHHHHHHHHHcCCcEEEEeCCCCH
Confidence            321            1  1123456999999997721              11234444444333444544454555432


Q ss_pred             ---ccchhccCCCCc--cceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHh
Q 007255          441 ---AIDAALMRPGRF--DLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALRE  514 (611)
Q Consensus       441 ---~ld~al~r~gRf--~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~  514 (611)
                         .+.+.+.+  ||  ...+.+|+|+.+++..+++.......+. ++..+..|+....| +.+++..+++....++...
T Consensus       134 ~~~~l~~~L~s--r~~~~~~i~l~pl~~~~~~~~l~~~~~~~~v~l~~~al~~L~~~~~g-n~~~l~~~l~~l~~~~~~~  210 (227)
T PRK08903        134 LALPLREDLRT--RLGWGLVYELKPLSDADKIAALKAAAAERGLQLADEVPDYLLTHFRR-DMPSLMALLDALDRYSLEQ  210 (227)
T ss_pred             HhCCCCHHHHH--HHhcCeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccC-CHHHHHHHHHHHHHHHHHh
Confidence               24566665  66  4699999999999999998766555444 33457888887777 8889999888766555444


Q ss_pred             hcccccccHHHHHHHHh
Q 007255          515 DISATAVRNRHFQTVKD  531 (611)
Q Consensus       515 ~~~~~~i~~~~~~~~l~  531 (611)
                         .++|+.....+++.
T Consensus       211 ---~~~i~~~~~~~~l~  224 (227)
T PRK08903        211 ---KRPVTLPLLREMLA  224 (227)
T ss_pred             ---CCCCCHHHHHHHHh
Confidence               36788888777764

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.54  E-value=1.6e-13  Score=134.01  Aligned_cols=203  Identities=20%  Similarity=0.227  Sum_probs=130.5

Q ss_pred             ccccccc--chhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhc
Q 007255          287 VTWEDIG--GLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELY  361 (611)
Q Consensus       287 ~~~~~i~--g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~  361 (611)
                      .+|++.+  +.+.+.+.+++++..             ..+.+++|+||+|||||++|++++.++   +.+++.+++.++.
T Consensus        12 ~~~~~~~~~~~~~~~~~l~~~~~~-------------~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~   78 (226)
T TIGR03420        12 PTFDNFYAGGNAELLAALRQLAAG-------------KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELA   78 (226)
T ss_pred             hhhcCcCcCCcHHHHHHHHHHHhc-------------CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHH
Confidence            3555654  355666777766431             345689999999999999999999887   4678888888775


Q ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc
Q 007255          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA  441 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~  441 (611)
                      ...        ..++...  ..+.+|+|||+|.+...            ......|...++.....+..+++.++..+..
T Consensus        79 ~~~--------~~~~~~~--~~~~lLvIDdi~~l~~~------------~~~~~~L~~~l~~~~~~~~~iIits~~~~~~  136 (226)
T TIGR03420        79 QAD--------PEVLEGL--EQADLVCLDDVEAIAGQ------------PEWQEALFHLYNRVREAGGRLLIAGRAAPAQ  136 (226)
T ss_pred             HhH--------HHHHhhc--ccCCEEEEeChhhhcCC------------hHHHHHHHHHHHHHHHcCCeEEEECCCChHH
Confidence            422        2223222  23459999999987321            0112333333332223334445444444544


Q ss_pred             cc---hhccCCCCc--cceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhh
Q 007255          442 ID---AALMRPGRF--DLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALRED  515 (611)
Q Consensus       442 ld---~al~r~gRf--~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~  515 (611)
                      ++   +.+.+  |+  ...+.+|+|+.+++..+++....+..+. ++..+..|+..+.| +.+++.++++.+...+....
T Consensus       137 ~~~~~~~L~~--r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~l~~L~~~~~g-n~r~L~~~l~~~~~~~~~~~  213 (226)
T TIGR03420       137 LPLRLPDLRT--RLAWGLVFQLPPLSDEEKIAALQSRAARRGLQLPDEVADYLLRHGSR-DMGSLMALLDALDRASLAAK  213 (226)
T ss_pred             CCcccHHHHH--HHhcCeeEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccC-CHHHHHHHHHHHHHHHHHhC
Confidence            32   56665  65  4789999999999999999766544443 34457888887655 89999999998776655543


Q ss_pred             cccccccHHHHHHHH
Q 007255          516 ISATAVRNRHFQTVK  530 (611)
Q Consensus       516 ~~~~~i~~~~~~~~l  530 (611)
                         ..|+.....+++
T Consensus       214 ---~~i~~~~~~~~~  225 (226)
T TIGR03420       214 ---RKITIPFVKEVL  225 (226)
T ss_pred             ---CCCCHHHHHHHh
Confidence               457666655544

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.54  E-value=2e-13  Score=149.62  Aligned_cols=187  Identities=16%  Similarity=0.226  Sum_probs=136.0

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---------------   80 (611)
                      ..|++|+|++.+++.|...+..            -+.+..+||+||+|+|||++++.+|+.+++.               
T Consensus        13 ~~f~~iiGq~~v~~~L~~~i~~------------~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~   80 (576)
T PRK14965         13 QTFSDLTGQEHVSRTLQNAIDT------------GRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCV   80 (576)
T ss_pred             CCHHHccCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHH
Confidence            6789999999999999988753            1345678999999999999999999998653               


Q ss_pred             ---------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh
Q 007255           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (611)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~  151 (611)
                               ++.+++.+      ......++++.+.+...+...+..|++|||+|.|..          ...+.|+..|+
T Consensus        81 ~i~~g~~~d~~eid~~s------~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~----------~a~naLLk~LE  144 (576)
T PRK14965         81 EITEGRSVDVFEIDGAS------NTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLST----------NAFNALLKTLE  144 (576)
T ss_pred             HHhcCCCCCeeeeeccC------ccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCH----------HHHHHHHHHHH
Confidence                     12222111      112345666666665554455667999999998853          45788999999


Q ss_pred             cCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCcc
Q 007255          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVG  230 (611)
Q Consensus       152 ~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~~  230 (611)
                      +      +++++++|.+|+.++.+.+.+++  |+. .+.|..++.++....+...+...+... +..+..++..++|- .
T Consensus       145 e------pp~~~~fIl~t~~~~kl~~tI~S--Rc~-~~~f~~l~~~~i~~~L~~i~~~egi~i~~~al~~la~~a~G~-l  214 (576)
T PRK14965        145 E------PPPHVKFIFATTEPHKVPITILS--RCQ-RFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDGS-M  214 (576)
T ss_pred             c------CCCCeEEEEEeCChhhhhHHHHH--hhh-hhhcCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCC-H
Confidence            7      33467888888888999999998  874 889999999999999988777665442 23477777777763 3


Q ss_pred             ccHHHHHHHH
Q 007255          231 ADLEALCREA  240 (611)
Q Consensus       231 ~dl~~l~~~a  240 (611)
                      +++.++++.+
T Consensus       215 r~al~~Ldql  224 (576)
T PRK14965        215 RDSLSTLDQV  224 (576)
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.54  E-value=1.7e-13  Score=150.47  Aligned_cols=189  Identities=19%  Similarity=0.251  Sum_probs=140.9

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc------------
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS------------  351 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------------  351 (611)
                      +.+.+|++|+|++.+++.|...+..            ...++.+|||||+|+|||++|+++|..++|.            
T Consensus        11 yRP~~f~~viGq~~~~~~L~~~i~~------------~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C   78 (614)
T PRK14971         11 YRPSTFESVVGQEALTTTLKNAIAT------------NKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNEC   78 (614)
T ss_pred             HCCCCHHHhcCcHHHHHHHHHHHHc------------CCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcc
Confidence            4567899999999999999998873            2456789999999999999999999998653            


Q ss_pred             -------------EEeecchhhccccccchHHHHHHHHHHHHhcC----CcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          352 -------------FFSLSGAELYSMYVGESEALLRNTFQRARLAA----PSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       352 -------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~----p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                                   ++.+++.+      ......++.+.+.+....    ..|++|||+|.+-              ....
T Consensus        79 ~sC~~~~~~~~~n~~~ld~~~------~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls--------------~~a~  138 (614)
T PRK14971         79 ESCVAFNEQRSYNIHELDAAS------NNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLS--------------QAAF  138 (614)
T ss_pred             hHHHHHhcCCCCceEEecccc------cCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCC--------------HHHH
Confidence                         22222211      111344666665554322    3499999999872              3567


Q ss_pred             HHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCc-ccHHHHHHhCC
Q 007255          415 STLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDD-VDLRSIAEETE  493 (611)
Q Consensus       415 ~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~  493 (611)
                      +.|++.|+  ++++.+++|++|+.+..+-+++++  |+. ++.|..++.++....++..+.+.++..+ ..+..++..+.
T Consensus       139 naLLK~LE--epp~~tifIL~tt~~~kIl~tI~S--Rc~-iv~f~~ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s~  213 (614)
T PRK14971        139 NAFLKTLE--EPPSYAIFILATTEKHKILPTILS--RCQ-IFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKAD  213 (614)
T ss_pred             HHHHHHHh--CCCCCeEEEEEeCCchhchHHHHh--hhh-eeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            89999998  567788888889888999999988  886 7999999999999888877766655433 45788888887


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 007255          494 LFTGAELEGLCREAGIV  510 (611)
Q Consensus       494 g~s~~~i~~~~~~a~~~  510 (611)
                      | +.+++.+.+.....+
T Consensus       214 g-dlr~al~~Lekl~~y  229 (614)
T PRK14971        214 G-GMRDALSIFDQVVSF  229 (614)
T ss_pred             C-CHHHHHHHHHHHHHh
Confidence            6 677777766654433

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.53  E-value=2.6e-13  Score=138.42  Aligned_cols=183  Identities=21%  Similarity=0.351  Sum_probs=131.9

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcC-CCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc-cccc-
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLG-LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-AHVG-   95 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g-~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~-~~~~-   95 (611)
                      .-|+|++++++.+..++...+........+. ...|.++||+||||||||++++++|+.++.+++.+++..+.. .+.| 
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~~e~g~vG~   91 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGR   91 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecceeecCCcccC
Confidence            3589999999999998876544332211111 225689999999999999999999999999999999887763 5666 


Q ss_pred             chHHHHHHHHHHHHh--------------------------------h--------------------------------
Q 007255           96 ESEKALREAFSQASS--------------------------------H--------------------------------  111 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~--------------------------------~--------------------------------  111 (611)
                      ..+..++.+|..+..                                .                                
T Consensus        92 dvE~i~r~l~e~A~~~i~~d~i~~~r~~a~~~ae~riv~~Ll~~~~~~~~~~~~~~~~~~~r~~~~~~l~~g~ldd~~ie  171 (441)
T TIGR00390        92 DVESMVRDLTDAAVKLVKEEAIEKVRDRAEELAEERIVDVLLPPAKNQWGQTEQQQEPESAREAFRKKLREGELDDKEIE  171 (441)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcCCccccccccccccchHHHHHHHHHHHhcCCccCcEEE
Confidence            455666666655400                                0                                


Q ss_pred             -----------------------------------------------------------------------hhcCCCeEE
Q 007255          112 -----------------------------------------------------------------------ALSGKPSVV  120 (611)
Q Consensus       112 -----------------------------------------------------------------------~~~~~~~il  120 (611)
                                                                                             ....+.+|+
T Consensus       172 i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ea~~~l~~~e~~~lid~~~v~~~a~~~~e~~GIV  251 (441)
T TIGR00390       172 IDVSAKMPSGIEIMAPPGMEEMTMQLQSLFQNLGGQKKKKRKLKIKDAKKALIAEEAAKLVDPEEIKQEAIDAVEQSGII  251 (441)
T ss_pred             EeecCCCCCccccCCCcchhHHHhhHHHHHHhhcCCCCceEEeEHHHHHHHHHHHHHHhccChHHHHHHHHHHHHcCCEE
Confidence                                                                                   001355799


Q ss_pred             EEccccccCCCCC--CCchhhHHHHHHHHHHHhcCCCC----CCCCCcEEEEEee----cCcccccHHhhccCCcceEEE
Q 007255          121 FIDEIDALCPRRD--HRREQDVRIASQLFTLMDSNKPS----KTSVPHVVVVAST----NRVDAIDPALRRSGRFDAEVE  190 (611)
Q Consensus       121 ~IDeid~l~~~~~--~~~~~~~~~~~~ll~~l~~~~~~----~~~~~~v~ii~tt----n~~~~l~~~l~~~~Rf~~~i~  190 (611)
                      ||||||.++....  +.......+++.|+.++++..-.    .....+++||++-    ..|+++=|.|.-  ||...+.
T Consensus       252 fiDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~~GAF~~~kp~DlIPEl~G--R~Pi~v~  329 (441)
T TIGR00390       252 FIDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNTKYGMVKTDHILFIAAGAFQLAKPSDLIPELQG--RFPIRVE  329 (441)
T ss_pred             EEEchhhhcccCCCCCCCCCccchhccccccccCceeeecceeEECCceeEEecCCcCCCChhhccHHHhC--ccceEEE
Confidence            9999999997653  22233446899999999873221    1123468888874    235667788865  9999999


Q ss_pred             ccCCCHHHHHHHH
Q 007255          191 VTVPTAEERFEIL  203 (611)
Q Consensus       191 ~~~p~~~~r~~Il  203 (611)
                      +.+++.++..+||
T Consensus       330 L~~L~~edL~rIL  342 (441)
T TIGR00390       330 LQALTTDDFERIL  342 (441)
T ss_pred             CCCCCHHHHHHHh
Confidence            9999999999998

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.53  E-value=4.9e-13  Score=138.80  Aligned_cols=228  Identities=18%  Similarity=0.269  Sum_probs=144.3

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHH--Hh--cCCC-CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc-cc
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQA--QK--LGLK-WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-AH   93 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~--~~--~g~~-~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~-~~   93 (611)
                      .++|++++++.+..++...+......  ..  .+.. ...++||+||||||||++|+++|+.++.++..+++..+.. .+
T Consensus        78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L~~~gy  157 (413)
T TIGR00382        78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGY  157 (413)
T ss_pred             eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhcccccc
Confidence            46999999999988875433321110  00  0111 2368999999999999999999999999999998887642 35


Q ss_pred             ccch-HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC----chhhHHHHHHHHHHHhcCCC-------CCCCCC
Q 007255           94 VGES-EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKP-------SKTSVP  161 (611)
Q Consensus        94 ~~~~-~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~----~~~~~~~~~~ll~~l~~~~~-------~~~~~~  161 (611)
                      .|.. ...+..++..........+++||||||+|.+.+..++.    ......+++.|+..|++...       ...+..
T Consensus       158 vG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~gr~~~~~  237 (413)
T TIGR00382       158 VGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGRKHPYQ  237 (413)
T ss_pred             ccccHHHHHHHHHHhCcccHHhcccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecccCCCccccCC
Confidence            5553 33344443332211123457899999999998753321    11223688899999975321       111234


Q ss_pred             cEEEEEeecCc---------------------------c-----------------------cccHHhhccCCcceEEEc
Q 007255          162 HVVVVASTNRV---------------------------D-----------------------AIDPALRRSGRFDAEVEV  191 (611)
Q Consensus       162 ~v~ii~ttn~~---------------------------~-----------------------~l~~~l~~~~Rf~~~i~~  191 (611)
                      +.++|.|+|..                           +                       .+.|+|..  |++..+.|
T Consensus       238 ~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEflg--Rld~Iv~f  315 (413)
T TIGR00382       238 EFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFIG--RLPVIATL  315 (413)
T ss_pred             CeEEEEcCCceeeecccccChHHHHHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHhC--CCCeEeec
Confidence            56777777651                           0                       13366654  99988999


Q ss_pred             cCCCHHHHHHHHHHh----hcC----C---CCCC---cccHHHHHHhc--cCCccccHHHHHHHHHHHHhhhcc
Q 007255          192 TVPTAEERFEILKLY----TKK----V---PLDA---NVDLEAIATSC--NGYVGADLEALCREATMSAVKRSS  249 (611)
Q Consensus       192 ~~p~~~~r~~Il~~~----~~~----~---~~~~---~~~~~~la~~~--~g~~~~dl~~l~~~a~~~a~~r~~  249 (611)
                      .+.+.+++.+|+...    .++    +   ....   +.-++.+++.+  ..+-+|.|+.+++..+...+....
T Consensus       316 ~pL~~~~L~~Il~~~~n~l~kq~~~~l~~~gi~L~~t~~a~~~Ia~~~~~~~~GAR~Lr~iie~~l~~~m~e~p  389 (413)
T TIGR00382       316 EKLDEEALIAILTKPKNALVKQYQALFKMDNVELDFEEEALKAIAKKALERKTGARGLRSIVEGLLLDVMFDLP  389 (413)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEECHHHHHHHHHhCCCCCCCchHHHHHHHHhhHHHHhhCC
Confidence            999999999998652    221    1   1111   12266677653  345667888888877766655443

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.53  E-value=3e-13  Score=145.95  Aligned_cols=178  Identities=16%  Similarity=0.181  Sum_probs=126.9

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---------------   80 (611)
                      ..|++|+|++.+++.|..++..            -+.+..+||+||+|||||++|+.+|+.+++.               
T Consensus        13 ~sf~dIiGQe~v~~~L~~ai~~------------~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~   80 (624)
T PRK14959         13 QTFAEVAGQETVKAILSRAAQE------------NRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCR   80 (624)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHH
Confidence            6789999999999999988753            1235689999999999999999999999753               


Q ss_pred             ---------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh
Q 007255           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (611)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~  151 (611)
                               ++.+++..      ......++.+.+........++..|+||||+|.|..          ..++.|+..++
T Consensus        81 ~i~~g~hpDv~eId~a~------~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~----------~a~naLLk~LE  144 (624)
T PRK14959         81 KVTQGMHVDVVEIDGAS------NRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTR----------EAFNALLKTLE  144 (624)
T ss_pred             HHhcCCCCceEEEeccc------ccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCH----------HHHHHHHHHhh
Confidence                     22222211      011223444433333333345567999999998843          45788888888


Q ss_pred             cCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCcc
Q 007255          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVG  230 (611)
Q Consensus       152 ~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~  230 (611)
                      ..      ..++++|.+|+.++.+.+.+++  |+. .+.|+.++.++...+++..+...... ....+..++..+.|...
T Consensus       145 EP------~~~~ifILaTt~~~kll~TI~S--Rcq-~i~F~pLs~~eL~~~L~~il~~egi~id~eal~lIA~~s~GdlR  215 (624)
T PRK14959        145 EP------PARVTFVLATTEPHKFPVTIVS--RCQ-HFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVR  215 (624)
T ss_pred             cc------CCCEEEEEecCChhhhhHHHHh--hhh-ccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH
Confidence            62      2357788888888889989988  874 78999999999999998877665543 22346777777665433

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.53  E-value=4.7e-13  Score=142.36  Aligned_cols=205  Identities=15%  Similarity=0.209  Sum_probs=139.1

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecchhhccccccchHH---HHHHHHHHHHhcCCcEEEEcccccc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEA---LLRNTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~a~~~~p~il~iDeid~l  395 (611)
                      .++++||||+|+|||+|++++++++     +..++++++.++...+......   .+..+...  ...+++|+|||++.+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l~~~~~~~~~~~~~--~~~~dvLiIDDiq~l  218 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDILQKTHKEIEQFKNE--ICQNDVLIIDDVQFL  218 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHHhhhHHHHHHHH--hccCCEEEEeccccc
Confidence            3569999999999999999999965     4788899998887765443221   12222111  235679999999988


Q ss_pred             cccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc---cchhccCCCCcc--ceeecCCCCHHHHHHHH
Q 007255          396 GAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA---IDAALMRPGRFD--LVLYVPPPDLEARHEIL  470 (611)
Q Consensus       396 ~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~---ld~al~r~gRf~--~~i~~~~p~~~~r~~il  470 (611)
                      .++            ......|...++.+...++.+||.+...|+.   +++.+.+  ||.  ..+.+.+|+.++|.+|+
T Consensus       219 ~~k------------~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~S--R~~~Gl~~~L~~pd~e~r~~iL  284 (450)
T PRK14087        219 SYK------------EKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLIT--RFNMGLSIAIQKLDNKTATAII  284 (450)
T ss_pred             cCC------------HHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHH--HHhCCceeccCCcCHHHHHHHH
Confidence            533            1222334333333334455566645555654   4667777  875  78889999999999999


Q ss_pred             HHHhcCCCC---CCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCC----CCCHHHHH
Q 007255          471 RVHTRNMKV---GDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKP----ALTKEEID  543 (611)
Q Consensus       471 ~~~~~~~~~---~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~----~~~~~~~~  543 (611)
                      +..++..+.   .++..++.|+..+.| +.+.+.++|..+...+..... .++++......++..+..    .++.+.|.
T Consensus       285 ~~~~~~~gl~~~l~~evl~~Ia~~~~g-d~R~L~gaL~~l~~~a~~~~~-~~~it~~~v~~~l~~~~~~~~~~~t~~~I~  362 (450)
T PRK14087        285 KKEIKNQNIKQEVTEEAINFISNYYSD-DVRKIKGSVSRLNFWSQQNPE-EKIITIEIVSDLFRDIPTSKLGILNVKKIK  362 (450)
T ss_pred             HHHHHhcCCCCCCCHHHHHHHHHccCC-CHHHHHHHHHHHHHHHhcccC-CCCCCHHHHHHHHhhccccccCCCCHHHHH
Confidence            977765432   344557889999988 899999999988765554321 257999999998876532    25666655


Q ss_pred             HHH
Q 007255          544 SYS  546 (611)
Q Consensus       544 ~~~  546 (611)
                      ...
T Consensus       363 ~~V  365 (450)
T PRK14087        363 EVV  365 (450)
T ss_pred             HHH
Confidence            443

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=99.53  E-value=1.4e-13  Score=134.37  Aligned_cols=215  Identities=20%  Similarity=0.293  Sum_probs=140.5

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---EEEEcccccc
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---LTVISPHSVH   90 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---~~~v~~~~~~   90 (611)
                      ..+.+++.+|+++.+.+ ...+...+..         ..-..++|+||||||||++|+.++.....+   |+.+++... 
T Consensus       133 RPktL~dyvGQ~hlv~q-~gllrs~ieq---------~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a-  201 (554)
T KOG2028|consen  133 RPKTLDDYVGQSHLVGQ-DGLLRSLIEQ---------NRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNA-  201 (554)
T ss_pred             CcchHHHhcchhhhcCc-chHHHHHHHc---------CCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEecccc-
Confidence            34778889999888765 3333222221         123689999999999999999999987655   777776543 


Q ss_pred             cccccchHHHHHHHHHHHHhhhh-cCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee
Q 007255           91 KAHVGESEKALREAFSQASSHAL-SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~~~~~-~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt  169 (611)
                            ....++++|++++.... ..+..||||||+|.+...          -+..++-..+.        +.|++|++|
T Consensus       202 ------~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNks----------QQD~fLP~VE~--------G~I~lIGAT  257 (554)
T KOG2028|consen  202 ------KTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNKS----------QQDTFLPHVEN--------GDITLIGAT  257 (554)
T ss_pred             ------chHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhhh----------hhhcccceecc--------CceEEEecc
Confidence                  23458889998887654 356789999999987542          23444444432        357888876


Q ss_pred             --cCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhc---C-----CCCCC------cccHHHHHHhccCCccccH
Q 007255          170 --NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK---K-----VPLDA------NVDLEAIATSCNGYVGADL  233 (611)
Q Consensus       170 --n~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~---~-----~~~~~------~~~~~~la~~~~g~~~~dl  233 (611)
                        |+.-.++.+|.+  |+. ++.+...+.+....|+.+-..   .     .++..      +.-+++++..+.|-....|
T Consensus       258 TENPSFqln~aLlS--RC~-VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR~aL  334 (554)
T KOG2028|consen  258 TENPSFQLNAALLS--RCR-VFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDARAAL  334 (554)
T ss_pred             cCCCccchhHHHHh--ccc-eeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHHHHH
Confidence              445589999999  874 788899999999999986332   1     11222      2237888999988766655


Q ss_pred             HHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhc
Q 007255          234 EALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (611)
Q Consensus       234 ~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~  271 (611)
                      ..|-- +......|....    ....++.+|.+...+.
T Consensus       335 N~Lem-s~~m~~tr~g~~----~~~~lSidDvke~lq~  367 (554)
T KOG2028|consen  335 NALEM-SLSMFCTRSGQS----SRVLLSIDDVKEGLQR  367 (554)
T ss_pred             HHHHH-HHHHHHhhcCCc----ccceecHHHHHHHHhh
Confidence            44422 222333333321    2345666777666543

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.53  E-value=5.7e-13  Score=142.33  Aligned_cols=191  Identities=19%  Similarity=0.183  Sum_probs=135.6

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc--------------
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--------------   80 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~--------------   80 (611)
                      ...|++++|++.+++.|...+..            -+.+..+||+||+|+|||++++++|+.+.+.              
T Consensus        10 P~~fdeiiGqe~v~~~L~~~I~~------------grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C   77 (535)
T PRK08451         10 PKHFDELIGQESVSKTLSLALDN------------NRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQC   77 (535)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc------------CCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHH
Confidence            36789999999999999998743            1345667999999999999999999988431              


Q ss_pred             ----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHH
Q 007255           81 ----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (611)
Q Consensus        81 ----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l  150 (611)
                                ++.+++.+      ......++.+.......+..++..|++|||+|.|..          ..++.|+..+
T Consensus        78 ~~~~~~~h~dv~eldaas------~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~----------~A~NALLK~L  141 (535)
T PRK08451         78 QSALENRHIDIIEMDAAS------NRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTK----------EAFNALLKTL  141 (535)
T ss_pred             HHHhhcCCCeEEEecccc------ccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCH----------HHHHHHHHHH
Confidence                      22222111      011234555554433333334567999999998854          5678899999


Q ss_pred             hcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCc
Q 007255          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYV  229 (611)
Q Consensus       151 ~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~  229 (611)
                      +..      +.++.+|.+|+.+..+.+.+++  |+ ..+.|.+++.++....+...+...+... +..+..++..+.| +
T Consensus       142 EEp------p~~t~FIL~ttd~~kL~~tI~S--Rc-~~~~F~~Ls~~ei~~~L~~Il~~EGi~i~~~Al~~Ia~~s~G-d  211 (535)
T PRK08451        142 EEP------PSYVKFILATTDPLKLPATILS--RT-QHFRFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGNG-S  211 (535)
T ss_pred             hhc------CCceEEEEEECChhhCchHHHh--hc-eeEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-c
Confidence            873      2346677777778999999999  86 4899999999999999998887655442 2346777777665 5


Q ss_pred             cccHHHHHHHHHHH
Q 007255          230 GADLEALCREATMS  243 (611)
Q Consensus       230 ~~dl~~l~~~a~~~  243 (611)
                      .+++.++++.+...
T Consensus       212 lR~alnlLdqai~~  225 (535)
T PRK08451        212 LRDTLTLLDQAIIY  225 (535)
T ss_pred             HHHHHHHHHHHHHh
Confidence            66666776665543

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.53  E-value=2.2e-13  Score=139.01  Aligned_cols=184  Identities=24%  Similarity=0.355  Sum_probs=131.5

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCC-CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc-cccc-
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGL-KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-AHVG-   95 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~-~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~-~~~~-   95 (611)
                      ..|+|++++++.+..++...+........... ..|.++||+||||||||++++.+|+.++.+++.++++.+.. .|.| 
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~   94 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGR   94 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccC
Confidence            34999999999999988654432221111111 13589999999999999999999999999999999987774 5666 


Q ss_pred             chHHHHHHHHHHHH------------------------------------------------------------------
Q 007255           96 ESEKALREAFSQAS------------------------------------------------------------------  109 (611)
Q Consensus        96 ~~~~~l~~~f~~~~------------------------------------------------------------------  109 (611)
                      ..+..++.+|..+.                                                                  
T Consensus        95 d~e~~ir~L~~~A~~~~~~~~~~~~~~~a~~~~e~ri~~~l~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~g~ldd~~ie  174 (443)
T PRK05201         95 DVESIIRDLVEIAVKMVREEKREKVREKAEEAAEERILDALLPPAKNNWGEEEEKEEISATRQKFRKKLREGELDDKEIE  174 (443)
T ss_pred             CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhCCCccCCccccccchhhhHHHHHHHHHHHcCCcCCcEEE
Confidence            44556666666551                                                                  


Q ss_pred             ----h--h--------------------------------------------------------------hhcCCCeEEE
Q 007255          110 ----S--H--------------------------------------------------------------ALSGKPSVVF  121 (611)
Q Consensus       110 ----~--~--------------------------------------------------------------~~~~~~~il~  121 (611)
                          .  .                                                              ....+.+|+|
T Consensus       175 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~eA~~~l~~~e~~~lid~~~v~~~ai~~ae~~GIVf  254 (443)
T PRK05201        175 IEVAEAAPMMEIMGPPGMEEMTIQLQDMFGNLGPKKKKKRKLKVKEARKILIEEEAAKLIDMEEIKQEAIERVEQNGIVF  254 (443)
T ss_pred             EEecCCCCcccCCCCcchhHHHHHHHHHHHhhCCCCCceEEeEHHHHHHHHHHHHHHhccChHHHHHHHHHHHHcCCEEE
Confidence                0  0                                                              0012457999


Q ss_pred             EccccccCCCCCC--CchhhHHHHHHHHHHHhcCCCC----CCCCCcEEEEEee----cCcccccHHhhccCCcceEEEc
Q 007255          122 IDEIDALCPRRDH--RREQDVRIASQLFTLMDSNKPS----KTSVPHVVVVAST----NRVDAIDPALRRSGRFDAEVEV  191 (611)
Q Consensus       122 IDeid~l~~~~~~--~~~~~~~~~~~ll~~l~~~~~~----~~~~~~v~ii~tt----n~~~~l~~~l~~~~Rf~~~i~~  191 (611)
                      |||||.++...++  .......+++.||.++++..-.    .....+++|||+-    ..|+++-|.|.-  ||...+.+
T Consensus       255 iDEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~~v~~k~~~i~T~~ILFI~~GAF~~~kp~DlIPEl~G--R~Pi~v~L  332 (443)
T PRK05201        255 IDEIDKIAARGGSSGPDVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILFIASGAFHVSKPSDLIPELQG--RFPIRVEL  332 (443)
T ss_pred             EEcchhhcccCCCCCCCCCccchhcccccccccceeeecceeEECCceeEEecCCcCCCChhhccHHHhC--ccceEEEC
Confidence            9999999976532  2233456899999999873221    1123468888873    235667789965  99999999


Q ss_pred             cCCCHHHHHHHHH
Q 007255          192 TVPTAEERFEILK  204 (611)
Q Consensus       192 ~~p~~~~r~~Il~  204 (611)
                      .+++.++..+||.
T Consensus       333 ~~L~~~dL~~ILt  345 (443)
T PRK05201        333 DALTEEDFVRILT  345 (443)
T ss_pred             CCCCHHHHHHHhc
Confidence            9999999999983

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.53  E-value=4.9e-13  Score=139.85  Aligned_cols=186  Identities=24%  Similarity=0.311  Sum_probs=131.5

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---------------   80 (611)
                      ..+++++|++.+++.|.+.+..            -..+..+||+||||+|||++++.+++.+.+.               
T Consensus        11 ~~~~~iig~~~~~~~l~~~~~~------------~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~   78 (355)
T TIGR02397        11 QTFEDVIGQEHIVQTLKNAIKN------------GRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCK   78 (355)
T ss_pred             CcHhhccCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHH
Confidence            4568999999999999988743            1245679999999999999999999998543               


Q ss_pred             ---------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh
Q 007255           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (611)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~  151 (611)
                               ++.++..      .......++.+++.+...+..+...|++|||+|.+..          ..++.++..++
T Consensus        79 ~~~~~~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~----------~~~~~Ll~~le  142 (355)
T TIGR02397        79 EINSGSSLDVIEIDAA------SNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSK----------SAFNALLKTLE  142 (355)
T ss_pred             HHhcCCCCCEEEeecc------ccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCH----------HHHHHHHHHHh
Confidence                     1222211      0122345667777766555556677999999998743          34677888886


Q ss_pred             cCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCcc
Q 007255          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVG  230 (611)
Q Consensus       152 ~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~  230 (611)
                      ..      ++++++|.+|+.++.+.+.+++  |+. .+.|++|+.++...++..++...+..-+ ..+..++..+.| ..
T Consensus       143 ~~------~~~~~lIl~~~~~~~l~~~l~s--r~~-~~~~~~~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g-~~  212 (355)
T TIGR02397       143 EP------PEHVVFILATTEPHKIPATILS--RCQ-RFDFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAADG-SL  212 (355)
T ss_pred             CC------ccceeEEEEeCCHHHHHHHHHh--hee-EEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-Ch
Confidence            52      2356777778888888899998  874 7899999999999999988876654322 346667776655 33


Q ss_pred             ccHHHHHHH
Q 007255          231 ADLEALCRE  239 (611)
Q Consensus       231 ~dl~~l~~~  239 (611)
                      +.+.+.++.
T Consensus       213 ~~a~~~lek  221 (355)
T TIGR02397       213 RDALSLLDQ  221 (355)
T ss_pred             HHHHHHHHH
Confidence            334444433

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.52  E-value=1.3e-12  Score=121.27  Aligned_cols=206  Identities=21%  Similarity=0.242  Sum_probs=148.5

Q ss_pred             ccccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCc
Q 007255            4 KGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAH   80 (611)
Q Consensus         4 ~~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~   80 (611)
                      ++...+.+.....++.+|+|.+.+++.|.+.....+.        | .+.+|+||+|.-|||||++++++.+++   +..
T Consensus        45 ~~~L~pv~~~~~i~L~~l~Gvd~qk~~L~~NT~~F~~--------G-~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glr  115 (287)
T COG2607          45 IGYLEPVPDPDPIDLADLVGVDRQKEALVRNTEQFAE--------G-LPANNVLLWGARGTGKSSLVKALLNEYADEGLR  115 (287)
T ss_pred             cCcccCCCCCCCcCHHHHhCchHHHHHHHHHHHHHHc--------C-CcccceEEecCCCCChHHHHHHHHHHHHhcCCe
Confidence            4556677777778999999999999999887655322        2 355899999999999999999998887   567


Q ss_pred             EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCC
Q 007255           81 LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSV  160 (611)
Q Consensus        81 ~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  160 (611)
                      +++|+.+++..         +-.+++..+..   .++.|||+||+-  +..       .......|-..+++.-..  .+
T Consensus       116 LVEV~k~dl~~---------Lp~l~~~Lr~~---~~kFIlFcDDLS--Fe~-------gd~~yK~LKs~LeG~ve~--rP  172 (287)
T COG2607         116 LVEVDKEDLAT---------LPDLVELLRAR---PEKFILFCDDLS--FEE-------GDDAYKALKSALEGGVEG--RP  172 (287)
T ss_pred             EEEEcHHHHhh---------HHHHHHHHhcC---CceEEEEecCCC--CCC-------CchHHHHHHHHhcCCccc--CC
Confidence            88888777643         44455555433   357899999983  111       113356666777765433  45


Q ss_pred             CcEEEEEeecCccccc--------------------HHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcc-cH-
Q 007255          161 PHVVVVASTNRVDAID--------------------PALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DL-  218 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~--------------------~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~-~~-  218 (611)
                      .+|+|.+|+|+...++                    +.+.-+.||...+.|++++.++..+|+.++.+...++.+. .+ 
T Consensus       173 ~NVl~YATSNRRHLl~e~~~dn~~~~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~~~l~~~~e~l~  252 (287)
T COG2607         173 ANVLFYATSNRRHLLPEDMKDNEGSTGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKHFGLDISDEELH  252 (287)
T ss_pred             CeEEEEEecCCcccccHhhhhCCCcccccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            6899999999865333                    2222245999999999999999999999999988877532 22 


Q ss_pred             ---HHHHHhccCCccccHHHHHHHHH
Q 007255          219 ---EAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       219 ---~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                         ...|..-.|.+|+...++++...
T Consensus       253 ~eAl~WAt~rg~RSGR~A~QF~~~~~  278 (287)
T COG2607         253 AEALQWATTRGGRSGRVAWQFIRDLA  278 (287)
T ss_pred             HHHHHHHHhcCCCccHhHHHHHHHHH
Confidence               22344456788888877776543

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.52  E-value=6.2e-13  Score=142.30  Aligned_cols=194  Identities=21%  Similarity=0.288  Sum_probs=131.9

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc-------EE-EEccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------LT-VISPH   87 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-------~~-~v~~~   87 (611)
                      ..|++++|++.+++.|...+..            .+.+..+||+||+|+|||++++.+|+.+++.       +- +.+|.
T Consensus        13 ~~f~diiGq~~i~~~L~~~i~~------------~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~   80 (486)
T PRK14953         13 KFFKEVIGQEIVVRILKNAVKL------------QRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCV   80 (486)
T ss_pred             CcHHHccChHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHH
Confidence            6789999999999999988743            1234568999999999999999999998641       00 00110


Q ss_pred             c--------cc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC
Q 007255           88 S--------VH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK  157 (611)
Q Consensus        88 ~--------~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  157 (611)
                      .        +.  +.........++.+.+.+...+..++..|++|||+|.|..          ...+.|+..++..    
T Consensus        81 ~i~~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~----------~a~naLLk~LEep----  146 (486)
T PRK14953         81 EIDKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTK----------EAFNALLKTLEEP----  146 (486)
T ss_pred             HHhcCCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCH----------HHHHHHHHHHhcC----
Confidence            0        10  0001111233555555555555556778999999998743          4467788888753    


Q ss_pred             CCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCccccHHHH
Q 007255          158 TSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEAL  236 (611)
Q Consensus       158 ~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~~dl~~l  236 (611)
                        ++.+++|.+|+.++.+.+.+.+  |+. .+.|++|+.+++..++...+...+...+ ..+..++..+.|- .+++.++
T Consensus       147 --p~~~v~Il~tt~~~kl~~tI~S--Rc~-~i~f~~ls~~el~~~L~~i~k~egi~id~~al~~La~~s~G~-lr~al~~  220 (486)
T PRK14953        147 --PPRTIFILCTTEYDKIPPTILS--RCQ-RFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEGG-MRDAASL  220 (486)
T ss_pred             --CCCeEEEEEECCHHHHHHHHHH--hce-EEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHH
Confidence              2345666667777889999988  875 7999999999999999998877665432 2366777766643 4455555


Q ss_pred             HHHHH
Q 007255          237 CREAT  241 (611)
Q Consensus       237 ~~~a~  241 (611)
                      ++.+.
T Consensus       221 Ldkl~  225 (486)
T PRK14953        221 LDQAS  225 (486)
T ss_pred             HHHHH
Confidence            55443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.52  E-value=4.9e-13  Score=137.73  Aligned_cols=203  Identities=24%  Similarity=0.269  Sum_probs=137.2

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC-----CcEEeecc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE-----ASFFSLSG  357 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~-----~~~~~~~~  357 (611)
                      .+.+.+|++++|++.+++.+..++..           + . ..+++|+||||||||++++++++++.     ..++.+++
T Consensus        10 kyrP~~~~~~~g~~~~~~~l~~~i~~-----------~-~-~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~   76 (319)
T PRK00440         10 KYRPRTLDEIVGQEEIVERLKSYVKE-----------K-N-MPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNA   76 (319)
T ss_pred             hhCCCcHHHhcCcHHHHHHHHHHHhC-----------C-C-CCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEecc
Confidence            44567899999999999999988763           1 1 22589999999999999999999873     23445544


Q ss_pred             hhhccccccchHHHHHHHHHH-HHh-----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeE
Q 007255          358 AELYSMYVGESEALLRNTFQR-ARL-----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGIL  431 (611)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~-a~~-----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  431 (611)
                      ++-.+      ...++..+.. +..     ..+.+++|||+|.+.              ....+.|+..++.  ....+.
T Consensus        77 ~~~~~------~~~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l~--------------~~~~~~L~~~le~--~~~~~~  134 (319)
T PRK00440         77 SDERG------IDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLT--------------SDAQQALRRTMEM--YSQNTR  134 (319)
T ss_pred             ccccc------hHHHHHHHHHHHhcCCCCCCCceEEEEeCcccCC--------------HHHHHHHHHHHhc--CCCCCe
Confidence            33211      1112222222 221     224599999999873              2234667777774  334566


Q ss_pred             EEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 007255          432 VLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       432 vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~  510 (611)
                      +|+++|.+..+.+++.+  |+. .+.|++++.++...+++..+++.++. ++..+..++..+.| +.+.+.+.++.+...
T Consensus       135 lIl~~~~~~~l~~~l~s--r~~-~~~~~~l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~g-d~r~~~~~l~~~~~~  210 (319)
T PRK00440        135 FILSCNYSSKIIDPIQS--RCA-VFRFSPLKKEAVAERLRYIAENEGIEITDDALEAIYYVSEG-DMRKAINALQAAAAT  210 (319)
T ss_pred             EEEEeCCccccchhHHH--Hhh-eeeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHc
Confidence            77788888888788877  776 68999999999999999877665543 44568888888776 555555555544332


Q ss_pred             HHHhhcccccccHHHHHHHHh
Q 007255          511 ALREDISATAVRNRHFQTVKD  531 (611)
Q Consensus       511 a~~~~~~~~~i~~~~~~~~l~  531 (611)
                             ...|+.+++..+..
T Consensus       211 -------~~~it~~~v~~~~~  224 (319)
T PRK00440        211 -------GKEVTEEAVYKITG  224 (319)
T ss_pred             -------CCCCCHHHHHHHhC
Confidence                   24577777776664

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.52  E-value=1.4e-12  Score=143.95  Aligned_cols=220  Identities=21%  Similarity=0.236  Sum_probs=137.4

Q ss_pred             cccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CC
Q 007255          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EA  350 (611)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~  350 (611)
                      .....+.+|++++|++...+.+...+..             ..+.+++|+||||||||++|+++++..          +.
T Consensus       145 ~~~~rp~~~~~iiGqs~~~~~l~~~ia~-------------~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~  211 (615)
T TIGR02903       145 QSLLRPRAFSEIVGQERAIKALLAKVAS-------------PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDA  211 (615)
T ss_pred             hhhcCcCcHHhceeCcHHHHHHHHHHhc-------------CCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCC
Confidence            3334567899999999988877665542             224569999999999999999998765          35


Q ss_pred             cEEeecchhhcc-------ccccchHH----HHHHHHHH----------HHhcCCcEEEEcccccccccCCCCCCCCcch
Q 007255          351 SFFSLSGAELYS-------MYVGESEA----LLRNTFQR----------ARLAAPSIIFFDEADVVGAKRGGSSSTSITV  409 (611)
Q Consensus       351 ~~~~~~~~~~~~-------~~~g~~~~----~~~~~~~~----------a~~~~p~il~iDeid~l~~~~~~~~~~~~~~  409 (611)
                      +|+.+++..+..       .+.|....    ..+..+..          ....+..+|||||++.+-             
T Consensus       212 ~fv~i~~~~l~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld-------------  278 (615)
T TIGR02903       212 PFVEVDGTTLRWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELD-------------  278 (615)
T ss_pred             CeEEEechhccCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCC-------------
Confidence            688888766521       11111000    00111110          112235599999998772             


Q ss_pred             hHHHHHHHHHHhcCCC--------------------------CCCCeEEEEec-CCCcccchhccCCCCccceeecCCCC
Q 007255          410 GERLLSTLLTEMDGLE--------------------------QAKGILVLAAT-NRPHAIDAALMRPGRFDLVLYVPPPD  462 (611)
Q Consensus       410 ~~~~~~~ll~~l~~~~--------------------------~~~~~~vI~~t-n~~~~ld~al~r~gRf~~~i~~~~p~  462 (611)
                       ......|+..|+.-.                          ....+++|++| +.++.+++++++  ||. .+.|++++
T Consensus       279 -~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrS--R~~-~i~~~pls  354 (615)
T TIGR02903       279 -PLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRS--RCA-EVFFEPLT  354 (615)
T ss_pred             -HHHHHHHHHHHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHh--cee-EEEeCCCC
Confidence             344556666654210                          12235666554 568889999988  998 67888999


Q ss_pred             HHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhc------ccccccHHHHHHHHhh
Q 007255          463 LEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDI------SATAVRNRHFQTVKDS  532 (611)
Q Consensus       463 ~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~------~~~~i~~~~~~~~l~~  532 (611)
                      .+++..|++..+...... ++..+..++..+.  .++...+++..+...++.+..      ....|+.+|+..++..
T Consensus       355 ~edi~~Il~~~a~~~~v~ls~eal~~L~~ys~--~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~  429 (615)
T TIGR02903       355 PEDIALIVLNAAEKINVHLAAGVEELIARYTI--EGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQI  429 (615)
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHCCC--cHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCC
Confidence            999999999887765432 2333455666543  455555555555444332221      1236788888888853

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.51  E-value=5.5e-13  Score=144.82  Aligned_cols=195  Identities=22%  Similarity=0.255  Sum_probs=135.2

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcE-------EE-Ecc
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL-------TV-ISP   86 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~-------~~-v~~   86 (611)
                      ...|++|+|++.+++.|..++..            -..+..+||+||+|+|||++++++|+.+++.-       -. -+|
T Consensus        12 P~~f~diiGqe~iv~~L~~~i~~------------~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C   79 (563)
T PRK06647         12 PRDFNSLEGQDFVVETLKHSIES------------NKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSC   79 (563)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHH
Confidence            35679999999999999998753            12456799999999999999999999987531       00 000


Q ss_pred             ccccc-------cccc---chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC
Q 007255           87 HSVHK-------AHVG---ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS  156 (611)
Q Consensus        87 ~~~~~-------~~~~---~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~  156 (611)
                      ..+..       ...|   .....++.+.+.+...+..++..|++|||+|.|..          ..++.|+..++.    
T Consensus        80 ~~i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~----------~a~naLLK~LEe----  145 (563)
T PRK06647         80 KSIDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSN----------SAFNALLKTIEE----  145 (563)
T ss_pred             HHHHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCH----------HHHHHHHHhhcc----
Confidence            00000       0011   12344556555555555556678999999998843          457788888885    


Q ss_pred             CCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCccccHHH
Q 007255          157 KTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEA  235 (611)
Q Consensus       157 ~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~~~dl~~  235 (611)
                        +++.+++|.+|+.+..+.+++++  |+. .+.|.+++.++..++++..+...+... +..+..++..+.| +.+++.+
T Consensus       146 --pp~~~vfI~~tte~~kL~~tI~S--Rc~-~~~f~~l~~~el~~~L~~i~~~egi~id~eAl~lLa~~s~G-dlR~als  219 (563)
T PRK06647        146 --PPPYIVFIFATTEVHKLPATIKS--RCQ-HFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTG-SVRDAYT  219 (563)
T ss_pred             --CCCCEEEEEecCChHHhHHHHHH--hce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHH
Confidence              33457777777888899999998  885 789999999999999988876555442 2346777776665 4555556


Q ss_pred             HHHHHH
Q 007255          236 LCREAT  241 (611)
Q Consensus       236 l~~~a~  241 (611)
                      +++.+.
T Consensus       220 lLdkli  225 (563)
T PRK06647        220 LFDQVV  225 (563)
T ss_pred             HHHHHH
Confidence            555543

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.51  E-value=8.1e-13  Score=136.36  Aligned_cols=186  Identities=18%  Similarity=0.088  Sum_probs=130.4

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEe----------
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS----------  354 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~----------  354 (611)
                      .+.++++|+|++.+++.|.+.+..            .+.++++||+||+|+||+++|.++|+.+.|.--.          
T Consensus        14 ~P~~~~~iiGq~~~~~~L~~~~~~------------~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~   81 (365)
T PRK07471         14 HPRETTALFGHAAAEAALLDAYRS------------GRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPT   81 (365)
T ss_pred             CCCchhhccChHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccc
Confidence            456789999999999999998874            3567889999999999999999999988442100          


Q ss_pred             ----------------ecchhhccccc---cc--------hHHHHHHHHHHHH----hcCCcEEEEcccccccccCCCCC
Q 007255          355 ----------------LSGAELYSMYV---GE--------SEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSS  403 (611)
Q Consensus       355 ----------------~~~~~~~~~~~---g~--------~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~  403 (611)
                                      -+.+++..-..   +.        .-..++.+.+.+.    ...+.|++|||+|.+        
T Consensus        82 ~l~~~~~c~~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m--------  153 (365)
T PRK07471         82 SLAIDPDHPVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEM--------  153 (365)
T ss_pred             cccCCCCChHHHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhc--------
Confidence                            00011110000   10        1223444444332    345679999999977        


Q ss_pred             CCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcc
Q 007255          404 STSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDV  483 (611)
Q Consensus       404 ~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~  483 (611)
                            +....+.||+.++  ++++++++|.+|+.++.+.+.+.+  |+. .+.|++|+.++..+++.....   ...+.
T Consensus       154 ------~~~aanaLLK~LE--epp~~~~~IL~t~~~~~llpti~S--Rc~-~i~l~~l~~~~i~~~L~~~~~---~~~~~  219 (365)
T PRK07471        154 ------NANAANALLKVLE--EPPARSLFLLVSHAPARLLPTIRS--RCR-KLRLRPLAPEDVIDALAAAGP---DLPDD  219 (365)
T ss_pred             ------CHHHHHHHHHHHh--cCCCCeEEEEEECCchhchHHhhc--cce-EEECCCCCHHHHHHHHHHhcc---cCCHH
Confidence                  3567899999998  577788888899999999888877  887 899999999999999885431   11222


Q ss_pred             cHHHHHHhCCCCCHHHHHHHHH
Q 007255          484 DLRSIAEETELFTGAELEGLCR  505 (611)
Q Consensus       484 ~~~~la~~~~g~s~~~i~~~~~  505 (611)
                      .+..++..+.| ++.....++.
T Consensus       220 ~~~~l~~~s~G-sp~~Al~ll~  240 (365)
T PRK07471        220 PRAALAALAEG-SVGRALRLAG  240 (365)
T ss_pred             HHHHHHHHcCC-CHHHHHHHhc
Confidence            23567777777 5655555554

>PRK08727 hypothetical protein; Validated

Probab=99.51  E-value=7.9e-13  Score=128.94  Aligned_cols=179  Identities=22%  Similarity=0.214  Sum_probs=113.5

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCC
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGG  401 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~  401 (611)
                      ..++|+||+|||||+++.+++.++   +....+++..++..        .+...++..  ...++|+|||++.+.++.  
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~~--------~~~~~~~~l--~~~dlLiIDDi~~l~~~~--  109 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAAG--------RLRDALEAL--EGRSLVALDGLESIAGQR--  109 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhhh--------hHHHHHHHH--hcCCEEEEeCcccccCCh--
Confidence            459999999999999999998775   55666666554332        233334333  345699999999885432  


Q ss_pred             CCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc---chhccCCCCc--cceeecCCCCHHHHHHHHHHHhcC
Q 007255          402 SSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI---DAALMRPGRF--DLVLYVPPPDLEARHEILRVHTRN  476 (611)
Q Consensus       402 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l---d~al~r~gRf--~~~i~~~~p~~~~r~~il~~~~~~  476 (611)
                             .....+-.+++.+   ...+..+++.+...|..+   ++++.+  ||  ...+.++.|+.+++.+|++.....
T Consensus       110 -------~~~~~lf~l~n~~---~~~~~~vI~ts~~~p~~l~~~~~dL~S--Rl~~~~~~~l~~~~~e~~~~iL~~~a~~  177 (233)
T PRK08727        110 -------EDEVALFDFHNRA---RAAGITLLYTARQMPDGLALVLPDLRS--RLAQCIRIGLPVLDDVARAAVLRERAQR  177 (233)
T ss_pred             -------HHHHHHHHHHHHH---HHcCCeEEEECCCChhhhhhhhHHHHH--HHhcCceEEecCCCHHHHHHHHHHHHHH
Confidence                   1112222333333   233333444444566654   688887  86  468899999999999999976544


Q ss_pred             CCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHh
Q 007255          477 MKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKD  531 (611)
Q Consensus       477 ~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~  531 (611)
                      ..+. ++..++.|++.+.| +.+.+.+++......+...   .++++...+..++.
T Consensus       178 ~~l~l~~e~~~~La~~~~r-d~r~~l~~L~~l~~~~~~~---~~~it~~~~~~~l~  229 (233)
T PRK08727        178 RGLALDEAAIDWLLTHGER-ELAGLVALLDRLDRESLAA---KRRVTVPFLRRVLE  229 (233)
T ss_pred             cCCCCCHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHh---CCCCCHHHHHHHHh
Confidence            3333 34457889998876 5555555566554433332   34577666666553

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.51  E-value=7.5e-13  Score=144.37  Aligned_cols=196  Identities=19%  Similarity=0.213  Sum_probs=139.4

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc--------
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS--------   85 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~--------   85 (611)
                      ....|++|+|++.+++.|..++..            -+.+..+||+||+|+|||++++.+|+.+++.....+        
T Consensus        19 RP~~f~dliGq~~~v~~L~~~~~~------------gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~c   86 (598)
T PRK09111         19 RPQTFDDLIGQEAMVRTLTNAFET------------GRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLC   86 (598)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccC
Confidence            346789999999999999998753            134678999999999999999999999876422111        


Q ss_pred             -----cc--------cccccc--ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHH
Q 007255           86 -----PH--------SVHKAH--VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (611)
Q Consensus        86 -----~~--------~~~~~~--~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l  150 (611)
                           |.        ++....  .......++.+.+.+...+...+..|++|||+|.|..          ...+.|+..+
T Consensus        87 g~c~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~----------~a~naLLKtL  156 (598)
T PRK09111         87 GVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLST----------AAFNALLKTL  156 (598)
T ss_pred             cccHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCH----------HHHHHHHHHH
Confidence                 00        010000  0112345677777666555566778999999998843          4578888888


Q ss_pred             hcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCc
Q 007255          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYV  229 (611)
Q Consensus       151 ~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~  229 (611)
                      ++.      ++++.+|.+|+..+.+.+.+++  |+. .+.|..++.++...++...+...+..-+ ..+..++..+.| +
T Consensus       157 EeP------p~~~~fIl~tte~~kll~tI~S--Rcq-~~~f~~l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~G-d  226 (598)
T PRK09111        157 EEP------PPHVKFIFATTEIRKVPVTVLS--RCQ-RFDLRRIEADVLAAHLSRIAAKEGVEVEDEALALIARAAEG-S  226 (598)
T ss_pred             HhC------CCCeEEEEEeCChhhhhHHHHh--hee-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-C
Confidence            863      3356777777888888899988  874 8999999999999999988876654433 346777777765 4


Q ss_pred             cccHHHHHHHHH
Q 007255          230 GADLEALCREAT  241 (611)
Q Consensus       230 ~~dl~~l~~~a~  241 (611)
                      .+++.++++.+.
T Consensus       227 lr~al~~Ldkli  238 (598)
T PRK09111        227 VRDGLSLLDQAI  238 (598)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555543

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.51  E-value=6.6e-13  Score=149.58  Aligned_cols=206  Identities=21%  Similarity=0.258  Sum_probs=135.6

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc--------
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK--------   91 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~--------   91 (611)
                      +..|++++|+.+.+++......       +......++|+||||+|||++++.+|+.++.+++.++.+...+        
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~~-------~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~~  395 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSRV-------NKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHR  395 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHhc-------ccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccch
Confidence            4899999999999887643221       1123457999999999999999999999999999888665432        


Q ss_pred             -ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCC---------CCCCCCC
Q 007255           92 -AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK---------PSKTSVP  161 (611)
Q Consensus        92 -~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~~~~  161 (611)
                       .+.|.....+...+..+.    . ...|++|||+|.+.+...+      .....|+..+|...         .......
T Consensus       396 ~~~~g~~~G~~~~~l~~~~----~-~~~villDEidk~~~~~~g------~~~~aLlevld~~~~~~~~d~~~~~~~dls  464 (784)
T PRK10787        396 RTYIGSMPGKLIQKMAKVG----V-KNPLFLLDEIDKMSSDMRG------DPASALLEVLDPEQNVAFSDHYLEVDYDLS  464 (784)
T ss_pred             hccCCCCCcHHHHHHHhcC----C-CCCEEEEEChhhcccccCC------CHHHHHHHHhccccEEEEecccccccccCC
Confidence             233333333333333322    1 2348999999999764321      23567888877421         1111235


Q ss_pred             cEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcC-----CCCCC------cccHHHHHHhc-cCCc
Q 007255          162 HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK-----VPLDA------NVDLEAIATSC-NGYV  229 (611)
Q Consensus       162 ~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~-----~~~~~------~~~~~~la~~~-~g~~  229 (611)
                      ++++|+|+|.. .++++|++  ||. .|.++.++.++..+|.+.++..     .....      +.-+..++..+ ..+-
T Consensus       465 ~v~~i~TaN~~-~i~~aLl~--R~~-ii~~~~~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~ai~~ii~~yt~e~G  540 (784)
T PRK10787        465 DVMFVATSNSM-NIPAPLLD--RME-VIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREAG  540 (784)
T ss_pred             ceEEEEcCCCC-CCCHHHhc--cee-eeecCCCCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHHHHHHHHHhCCcccC
Confidence            78999999987 59999998  995 8999999999999999887731     11111      11144554432 2233


Q ss_pred             cccHHHHHHHHHHHHhhh
Q 007255          230 GADLEALCREATMSAVKR  247 (611)
Q Consensus       230 ~~dl~~l~~~a~~~a~~r  247 (611)
                      .|.++..+...+...+.+
T Consensus       541 aR~LeR~I~~i~r~~l~~  558 (784)
T PRK10787        541 VRSLEREISKLCRKAVKQ  558 (784)
T ss_pred             CcHHHHHHHHHHHHHHHH
Confidence            466766666655554443

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.51  E-value=9.4e-13  Score=139.72  Aligned_cols=223  Identities=21%  Similarity=0.249  Sum_probs=146.5

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecchhhcc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYS  362 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~~~~~~  362 (611)
                      ..+.+.|.++..+.|...+...+.        + ..+.+++++||||||||++++.+++++     +..++.+++....+
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~--------~-~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~   98 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALR--------G-SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRT   98 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhC--------C-CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCC
Confidence            446788888888888777753221        1 234568999999999999999999887     46788887754321


Q ss_pred             ----------ccc-------c-chHHHHHHHHHHHHh-cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcC
Q 007255          363 ----------MYV-------G-ESEALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (611)
Q Consensus       363 ----------~~~-------g-~~~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~  423 (611)
                                ...       + .....+..+.+.... ..+.||+|||+|.+....          ....+..|+..++.
T Consensus        99 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~----------~~~~l~~l~~~~~~  168 (394)
T PRK00411         99 RYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKE----------GNDVLYSLLRAHEE  168 (394)
T ss_pred             HHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccC----------CchHHHHHHHhhhc
Confidence                      111       1 123334444444433 345799999999986211          12456667666654


Q ss_pred             CCCCCCeEEEEecCCCc---ccchhccCCCCcc-ceeecCCCCHHHHHHHHHHHhcCC---CCCCcccHHHHHHhCCCC-
Q 007255          424 LEQAKGILVLAATNRPH---AIDAALMRPGRFD-LVLYVPPPDLEARHEILRVHTRNM---KVGDDVDLRSIAEETELF-  495 (611)
Q Consensus       424 ~~~~~~~~vI~~tn~~~---~ld~al~r~gRf~-~~i~~~~p~~~~r~~il~~~~~~~---~~~~~~~~~~la~~~~g~-  495 (611)
                      .. ..++.+|+++|.++   .+++.+.+  ||. ..|.|++++.++..+|++..++..   ...++..++.+++.+.+. 
T Consensus       169 ~~-~~~v~vI~i~~~~~~~~~l~~~~~s--~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~  245 (394)
T PRK00411        169 YP-GARIGVIGISSDLTFLYILDPRVKS--VFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREH  245 (394)
T ss_pred             cC-CCeEEEEEEECCcchhhhcCHHHHh--cCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhc
Confidence            32 23788888888765   46676665  563 578999999999999999776432   122344466777766332 


Q ss_pred             -CHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhcC
Q 007255          496 -TGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLK  534 (611)
Q Consensus       496 -s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~  534 (611)
                       ..+.+..+|..|...|..+.  ...|+.+|+..++..+.
T Consensus       246 Gd~r~a~~ll~~a~~~a~~~~--~~~I~~~~v~~a~~~~~  283 (394)
T PRK00411        246 GDARVAIDLLRRAGLIAEREG--SRKVTEEDVRKAYEKSE  283 (394)
T ss_pred             CcHHHHHHHHHHHHHHHHHcC--CCCcCHHHHHHHHHHHH
Confidence             34555677777777776543  35688888888887653

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.50  E-value=9.5e-13  Score=135.11  Aligned_cols=191  Identities=15%  Similarity=0.101  Sum_probs=132.8

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-------EEee--
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-------FFSL--  355 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-------~~~~--  355 (611)
                      .+..+++++|++.+.+.|...+..            .+.++++||+||+|+|||++|+.+|+.+.+.       ....  
T Consensus        18 ~P~~~~~l~Gh~~a~~~L~~a~~~------------grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~   85 (351)
T PRK09112         18 SPSENTRLFGHEEAEAFLAQAYRE------------GKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADP   85 (351)
T ss_pred             CCCchhhccCcHHHHHHHHHHHHc------------CCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCC
Confidence            456789999999999999999874            3556789999999999999999999998662       1000  


Q ss_pred             --cc-----------hhhc---ccc--c------cchHHHHHHHHHHHH----hcCCcEEEEcccccccccCCCCCCCCc
Q 007255          356 --SG-----------AELY---SMY--V------GESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSI  407 (611)
Q Consensus       356 --~~-----------~~~~---~~~--~------g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~  407 (611)
                        .+           +++.   ...  .      .-+...++.+.+...    .....|++|||+|.+            
T Consensus        86 ~~~c~~c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l------------  153 (351)
T PRK09112         86 DPASPVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDM------------  153 (351)
T ss_pred             CCCCHHHHHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhc------------
Confidence              00           0110   000  0      001233444333322    233459999999987            


Q ss_pred             chhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHH
Q 007255          408 TVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRS  487 (611)
Q Consensus       408 ~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~  487 (611)
                        +....+.||+.|+  +++.+.++|..|+.|+.+.+.+++  |+. .+.|++|+.++..++++....... .++..+..
T Consensus       154 --~~~aanaLLk~LE--Epp~~~~fiLit~~~~~llptIrS--Rc~-~i~l~pl~~~~~~~~L~~~~~~~~-~~~~~~~~  225 (351)
T PRK09112        154 --NRNAANAILKTLE--EPPARALFILISHSSGRLLPTIRS--RCQ-PISLKPLDDDELKKALSHLGSSQG-SDGEITEA  225 (351)
T ss_pred             --CHHHHHHHHHHHh--cCCCCceEEEEECChhhccHHHHh--hcc-EEEecCCCHHHHHHHHHHhhcccC-CCHHHHHH
Confidence              3556789999998  567778888888999999899887  885 999999999999999986432222 22334677


Q ss_pred             HHHhCCCCCHHHHHHHHHHHH
Q 007255          488 IAEETELFTGAELEGLCREAG  508 (611)
Q Consensus       488 la~~~~g~s~~~i~~~~~~a~  508 (611)
                      +++.+.| +++....++....
T Consensus       226 i~~~s~G-~pr~Al~ll~~~~  245 (351)
T PRK09112        226 LLQRSKG-SVRKALLLLNYGG  245 (351)
T ss_pred             HHHHcCC-CHHHHHHHHhcCc
Confidence            8888887 6666666665443

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.50  E-value=1.5e-12  Score=136.62  Aligned_cols=221  Identities=21%  Similarity=0.261  Sum_probs=134.6

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC---------CcEEEEccccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---------AHLTVISPHSV   89 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~---------~~~~~v~~~~~   89 (611)
                      ++++|.++.++.|...+...+.        | ..+.+++++||||||||++++.+++++.         ..++++++...
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~--------~-~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~   85 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILR--------G-SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQIL   85 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHc--------C-CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCC
Confidence            5799999999999998864221        1 2456899999999999999999998763         45777787543


Q ss_pred             cccc-------------------cc-chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHH
Q 007255           90 HKAH-------------------VG-ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (611)
Q Consensus        90 ~~~~-------------------~~-~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~  149 (611)
                      ....                   .+ .....+..++....   ...++.||+|||+|.+....       ..++..++.+
T Consensus        86 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~---~~~~~~vlvIDE~d~L~~~~-------~~~L~~l~~~  155 (365)
T TIGR02928        86 DTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELN---ERGDSLIIVLDEIDYLVGDD-------DDLLYQLSRA  155 (365)
T ss_pred             CCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHH---hcCCeEEEEECchhhhccCC-------cHHHHhHhcc
Confidence            2110                   00 01112223332221   12457899999999997321       1234444443


Q ss_pred             HhcCCCCCCCCCcEEEEEeecCcc---cccHHhhccCCcc-eEEEccCCCHHHHHHHHHHhhcCC-C--CCCcccHHHHH
Q 007255          150 MDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKV-P--LDANVDLEAIA  222 (611)
Q Consensus       150 l~~~~~~~~~~~~v~ii~ttn~~~---~l~~~l~~~~Rf~-~~i~~~~p~~~~r~~Il~~~~~~~-~--~~~~~~~~~la  222 (611)
                      .+...   ....++.+|+++|.++   .+++++.+  ||. ..+.|++|+.+++.+|++..+... .  .-.+..++.++
T Consensus       156 ~~~~~---~~~~~v~lI~i~n~~~~~~~l~~~~~s--~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~  230 (365)
T TIGR02928       156 RSNGD---LDNAKVGVIGISNDLKFRENLDPRVKS--SLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCA  230 (365)
T ss_pred             ccccC---CCCCeEEEEEEECCcchHhhcCHHHhc--cCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHH
Confidence            22111   1223688889998875   57888887  774 579999999999999999887521 1  11121233333


Q ss_pred             ---HhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhcc
Q 007255          223 ---TSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       223 ---~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i  272 (611)
                         ..+.|.. +.+..+++.|...+..+..        ..++.+++..+....
T Consensus       231 ~~~~~~~Gd~-R~al~~l~~a~~~a~~~~~--------~~it~~~v~~a~~~~  274 (365)
T TIGR02928       231 ALAAQEHGDA-RKAIDLLRVAGEIAEREGA--------ERVTEDHVEKAQEKI  274 (365)
T ss_pred             HHHHHhcCCH-HHHHHHHHHHHHHHHHcCC--------CCCCHHHHHHHHHHH
Confidence               3334443 3344566666655544321        246677776655543

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.50  E-value=9.1e-13  Score=134.80  Aligned_cols=174  Identities=13%  Similarity=0.174  Sum_probs=124.4

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc--cc
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS--MY  364 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~--~~  364 (611)
                      ++|++|+|++.+++.+...+..            .+.++.+||+||+|+|||++|+++|..+.|....-+.+++..  .+
T Consensus         1 m~~~~i~g~~~~~~~l~~~~~~------------~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~   68 (313)
T PRK05564          1 MSFHTIIGHENIKNRIKNSIIK------------NRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPI   68 (313)
T ss_pred             CChhhccCcHHHHHHHHHHHHc------------CCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccc
Confidence            4689999999999999998863            355678999999999999999999998754321111111110  00


Q ss_pred             ccc--hHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCC
Q 007255          365 VGE--SEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR  438 (611)
Q Consensus       365 ~g~--~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~  438 (611)
                      .|.  .-..++.+.+.+..    ....|++||++|.+              +....+.||+.|+  ++++++++|.+|+.
T Consensus        69 ~~~~i~v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m--------------~~~a~naLLK~LE--epp~~t~~il~~~~  132 (313)
T PRK05564         69 NKKSIGVDDIRNIIEEVNKKPYEGDKKVIIIYNSEKM--------------TEQAQNAFLKTIE--EPPKGVFIILLCEN  132 (313)
T ss_pred             cCCCCCHHHHHHHHHHHhcCcccCCceEEEEechhhc--------------CHHHHHHHHHHhc--CCCCCeEEEEEeCC
Confidence            111  22345555554332    23359999999877              3557899999999  67888888888899


Q ss_pred             CcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCC
Q 007255          439 PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETEL  494 (611)
Q Consensus       439 ~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g  494 (611)
                      |+.+-+.+.+  |+. .+.|+.|+.++....+.....+   .++..+..++..+.|
T Consensus       133 ~~~ll~TI~S--Rc~-~~~~~~~~~~~~~~~l~~~~~~---~~~~~~~~l~~~~~g  182 (313)
T PRK05564        133 LEQILDTIKS--RCQ-IYKLNRLSKEEIEKFISYKYND---IKEEEKKSAIAFSDG  182 (313)
T ss_pred             hHhCcHHHHh--hce-eeeCCCcCHHHHHHHHHHHhcC---CCHHHHHHHHHHcCC
Confidence            9999999988  886 9999999999988877754432   123446677777776

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.50  E-value=8.9e-13  Score=133.51  Aligned_cols=184  Identities=11%  Similarity=0.111  Sum_probs=130.6

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE----------Eeecc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF----------FSLSG  357 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~----------~~~~~  357 (611)
                      .|++|+|++.+++.+...+..            .+.++++||+||+|+||+++|.++|+.+.+.-          ...+.
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~------------~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~h   69 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQ------------NRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNH   69 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHh------------CCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCC
Confidence            588999999999999999874            25568999999999999999999999874331          11222


Q ss_pred             hhhcccc-----ccc--------------------hHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcc
Q 007255          358 AELYSMY-----VGE--------------------SEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSIT  408 (611)
Q Consensus       358 ~~~~~~~-----~g~--------------------~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~  408 (611)
                      +|+.--+     .|.                    .-..++.+.+.+..    ....|++||++|.+             
T Consensus        70 PDl~~i~p~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m-------------  136 (314)
T PRK07399         70 PDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETM-------------  136 (314)
T ss_pred             CCEEEEeccccccccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhc-------------
Confidence            2222000     011                    11235555444432    23459999999877             


Q ss_pred             hhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHH
Q 007255          409 VGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSI  488 (611)
Q Consensus       409 ~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~l  488 (611)
                       +....|.||+.|+  +++ +.++|.+|+.|+.+-|.+++  |+. .+.|++|+.++..+++........  .+.+...+
T Consensus       137 -~~~aaNaLLK~LE--EPp-~~~fILi~~~~~~Ll~TI~S--Rcq-~i~f~~l~~~~~~~~L~~~~~~~~--~~~~~~~l  207 (314)
T PRK07399        137 -NEAAANALLKTLE--EPG-NGTLILIAPSPESLLPTIVS--RCQ-IIPFYRLSDEQLEQVLKRLGDEEI--LNINFPEL  207 (314)
T ss_pred             -CHHHHHHHHHHHh--CCC-CCeEEEEECChHhCcHHHHh--hce-EEecCCCCHHHHHHHHHHhhcccc--chhHHHHH
Confidence             3567899999998  455 66788889999999999998  887 899999999999999985532111  12235788


Q ss_pred             HHhCCCCCHHHHHHHHHH
Q 007255          489 AEETELFTGAELEGLCRE  506 (611)
Q Consensus       489 a~~~~g~s~~~i~~~~~~  506 (611)
                      +..+.| +++.+..+++.
T Consensus       208 ~~~a~G-s~~~al~~l~~  224 (314)
T PRK07399        208 LALAQG-SPGAAIANIEQ  224 (314)
T ss_pred             HHHcCC-CHHHHHHHHHH
Confidence            888888 67666666553

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.50  E-value=5.7e-13  Score=136.93  Aligned_cols=155  Identities=26%  Similarity=0.360  Sum_probs=111.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      +.|++++|++++++.+..++..            -..|+.+||+||||+|||+++++++++++..++.+++++ . . ..
T Consensus        18 ~~~~~~~~~~~~~~~l~~~~~~------------~~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~-~-~-~~   82 (316)
T PHA02544         18 STIDECILPAADKETFKSIVKK------------GRIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD-C-R-ID   82 (316)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhc------------CCCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc-c-c-HH
Confidence            7899999999999999988742            124566777999999999999999999998898888876 1 1 11


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccc
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l  175 (611)
                      .....+...   .........+.+++|||+|.+...         .....+...++...      .++.+|.+||.++.+
T Consensus        83 ~i~~~l~~~---~~~~~~~~~~~vliiDe~d~l~~~---------~~~~~L~~~le~~~------~~~~~Ilt~n~~~~l  144 (316)
T PHA02544         83 FVRNRLTRF---ASTVSLTGGGKVIIIDEFDRLGLA---------DAQRHLRSFMEAYS------KNCSFIITANNKNGI  144 (316)
T ss_pred             HHHHHHHHH---HHhhcccCCCeEEEEECcccccCH---------HHHHHHHHHHHhcC------CCceEEEEcCChhhc
Confidence            111112211   111111235789999999987321         23455666666532      246788899999999


Q ss_pred             cHHhhccCCcceEEEccCCCHHHHHHHHHHh
Q 007255          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLY  206 (611)
Q Consensus       176 ~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~  206 (611)
                      .+++++  ||. .+.++.|+.+++..+++.+
T Consensus       145 ~~~l~s--R~~-~i~~~~p~~~~~~~il~~~  172 (316)
T PHA02544        145 IEPLRS--RCR-VIDFGVPTKEEQIEMMKQM  172 (316)
T ss_pred             hHHHHh--hce-EEEeCCCCHHHHHHHHHHH
Confidence            999998  885 7899999999998887654

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.50  E-value=1.1e-12  Score=137.60  Aligned_cols=181  Identities=20%  Similarity=0.251  Sum_probs=125.7

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc----c-
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV----H-   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~----~-   90 (611)
                      ..|++++|++.+++.+.+.+..            -..+.++||+||||+|||++++++++.+...........+    . 
T Consensus        14 ~~~~~iig~~~~~~~l~~~i~~------------~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~   81 (367)
T PRK14970         14 QTFDDVVGQSHITNTLLNAIEN------------NHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFE   81 (367)
T ss_pred             CcHHhcCCcHHHHHHHHHHHHc------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEE
Confidence            6789999999999999988754            1345789999999999999999999998653211110000    0 


Q ss_pred             -cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee
Q 007255           91 -KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (611)
Q Consensus        91 -~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt  169 (611)
                       +.........++.+++.+...+..+.+.|++|||+|.+..          ..++.++..++..      +...++|.++
T Consensus        82 l~~~~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~----------~~~~~ll~~le~~------~~~~~~Il~~  145 (367)
T PRK14970         82 LDAASNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSS----------AAFNAFLKTLEEP------PAHAIFILAT  145 (367)
T ss_pred             eccccCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcCH----------HHHHHHHHHHhCC------CCceEEEEEe
Confidence             0011122345666676665544455677999999997743          3456777777652      2245666667


Q ss_pred             cCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccC
Q 007255          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNG  227 (611)
Q Consensus       170 n~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g  227 (611)
                      +....+.+++.+  |+. .+.+++|+.++...++...+...+.. .+..+..++..+.|
T Consensus       146 ~~~~kl~~~l~s--r~~-~v~~~~~~~~~l~~~l~~~~~~~g~~i~~~al~~l~~~~~g  201 (367)
T PRK14970        146 TEKHKIIPTILS--RCQ-IFDFKRITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADG  201 (367)
T ss_pred             CCcccCCHHHHh--cce-eEecCCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCC
Confidence            777889999988  774 78999999999999998877766543 23346777776554

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=99.50  E-value=1.8e-13  Score=144.28  Aligned_cols=198  Identities=20%  Similarity=0.257  Sum_probs=151.8

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEE-------EE-c
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT-------VI-S   85 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~-------~v-~   85 (611)
                      +.+.|++++|++.+++.|..++..            -+.....||+||-|||||+++|.+|+.+++.--       .+ .
T Consensus        11 RP~~F~evvGQe~v~~~L~nal~~------------~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~   78 (515)
T COG2812          11 RPKTFDDVVGQEHVVKTLSNALEN------------GRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCIS   78 (515)
T ss_pred             CcccHHHhcccHHHHHHHHHHHHh------------CcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhh
Confidence            347789999999999999999865            234578999999999999999999999976520       00 1


Q ss_pred             cccccc----------ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCC
Q 007255           86 PHSVHK----------AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP  155 (611)
Q Consensus        86 ~~~~~~----------~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~  155 (611)
                      |..+..          .-.......++.+.+.+.-.+..++.-|++|||+|.|..          ...+.|+..+++   
T Consensus        79 Ck~I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~----------~afNALLKTLEE---  145 (515)
T COG2812          79 CKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSK----------QAFNALLKTLEE---  145 (515)
T ss_pred             hHhhhcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhH----------HHHHHHhccccc---
Confidence            111111          111223456778888887777778888999999998844          567889998887   


Q ss_pred             CCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCccc-HHHHHHhccCCccccHH
Q 007255          156 SKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLE  234 (611)
Q Consensus       156 ~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~-~~~la~~~~g~~~~dl~  234 (611)
                         ++.+|.+|.+|+.++.+++.+++  |+. .+.|...+.++....+...+.+..+..+.+ +..++...+| +.||..
T Consensus       146 ---PP~hV~FIlATTe~~Kip~TIlS--Rcq-~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~G-s~RDal  218 (515)
T COG2812         146 ---PPSHVKFILATTEPQKIPNTILS--RCQ-RFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEG-SLRDAL  218 (515)
T ss_pred             ---CccCeEEEEecCCcCcCchhhhh--ccc-cccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHHHHHcCC-ChhhHH
Confidence               56689999999999999999999  885 899999999999999999998877765544 5555665554 568888


Q ss_pred             HHHHHHHHH
Q 007255          235 ALCREATMS  243 (611)
Q Consensus       235 ~l~~~a~~~  243 (611)
                      .+.+.+...
T Consensus       219 slLDq~i~~  227 (515)
T COG2812         219 SLLDQAIAF  227 (515)
T ss_pred             HHHHHHHHc
Confidence            888877644

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.49  E-value=6.6e-13  Score=144.29  Aligned_cols=217  Identities=18%  Similarity=0.200  Sum_probs=137.4

Q ss_pred             cccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEeecch
Q 007255          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSGA  358 (611)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~~~~  358 (611)
                      -+.|.|.++-.+.|..++...+.        +..+...++++|+||||||++++.+..++          .+.++.+++.
T Consensus       754 PD~LPhREeEIeeLasfL~paIk--------gsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm  825 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIK--------QSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGM  825 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHh--------cCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCC
Confidence            35677888877777777664332        22333345699999999999999998776          2567888885


Q ss_pred             hhcccc----------------cc-chHHHHHHHHHHHHh--cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHH
Q 007255          359 ELYSMY----------------VG-ESEALLRNTFQRARL--AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLT  419 (611)
Q Consensus       359 ~~~~~~----------------~g-~~~~~~~~~~~~a~~--~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~  419 (611)
                      .+...+                .| .+...+..+|.....  ....||+|||||.|..+           ...++-.|+.
T Consensus       826 ~Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK-----------~QDVLYnLFR  894 (1164)
T PTZ00112        826 NVVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITK-----------TQKVLFTLFD  894 (1164)
T ss_pred             ccCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCcc-----------HHHHHHHHHH
Confidence            433221                11 123455666665422  23469999999999532           1234444444


Q ss_pred             HhcCCCCCCCeEEEEecCC---CcccchhccCCCCccc-eeecCCCCHHHHHHHHHHHhcCC-CCCCcccHHHHHHhCCC
Q 007255          420 EMDGLEQAKGILVLAATNR---PHAIDAALMRPGRFDL-VLYVPPPDLEARHEILRVHTRNM-KVGDDVDLRSIAEETEL  494 (611)
Q Consensus       420 ~l~~~~~~~~~~vI~~tn~---~~~ld~al~r~gRf~~-~i~~~~p~~~~r~~il~~~~~~~-~~~~~~~~~~la~~~~g  494 (611)
                      ...  ....+++|||++|.   ++.+++.+.+  ||.. .|.|++++.+++.+||+..+... ...++..++.+|+....
T Consensus       895 ~~~--~s~SKLiLIGISNdlDLperLdPRLRS--RLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq  970 (1164)
T PTZ00112        895 WPT--KINSKLVLIAISNTMDLPERLIPRCRS--RLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVAN  970 (1164)
T ss_pred             Hhh--ccCCeEEEEEecCchhcchhhhhhhhh--ccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhh
Confidence            332  24567999999986   5567888877  6653 58889999999999999777643 23344446667663332


Q ss_pred             C--CHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhc
Q 007255          495 F--TGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       495 ~--s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~  533 (611)
                      .  ..+.+-.+|+.|+..+     ....|+.+|+..|+..+
T Consensus       971 ~SGDARKALDILRrAgEik-----egskVT~eHVrkAleei 1006 (1164)
T PTZ00112        971 VSGDIRKALQICRKAFENK-----RGQKIVPRDITEATNQL 1006 (1164)
T ss_pred             cCCHHHHHHHHHHHHHhhc-----CCCccCHHHHHHHHHHH
Confidence            1  3344444555555431     22357777777777554

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=99.49  E-value=2.8e-13  Score=130.48  Aligned_cols=199  Identities=22%  Similarity=0.276  Sum_probs=124.9

Q ss_pred             CCccccccc-c--hhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeec
Q 007255          285 PKVTWEDIG-G--LRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLS  356 (611)
Q Consensus       285 ~~~~~~~i~-g--~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~  356 (611)
                      |+.+|+..+ |  .+.+..........           .......++||||+|+|||+|.+|+++++     +..+++++
T Consensus         3 ~~~tFdnfv~g~~N~~a~~~~~~ia~~-----------~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~   71 (219)
T PF00308_consen    3 PKYTFDNFVVGESNELAYAAAKAIAEN-----------PGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS   71 (219)
T ss_dssp             TT-SCCCS--TTTTHHHHHHHHHHHHS-----------TTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE
T ss_pred             CCCccccCCcCCcHHHHHHHHHHHHhc-----------CCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec
Confidence            456777764 4  33444444444442           11223458999999999999999999875     67789999


Q ss_pred             chhhccccccchHH-HHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEe
Q 007255          357 GAELYSMYVGESEA-LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAA  435 (611)
Q Consensus       357 ~~~~~~~~~g~~~~-~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~  435 (611)
                      +.++...+...... .+..+.+..  ...++|+||+++.+.++            ......|...++.+...++.+||.+
T Consensus        72 ~~~f~~~~~~~~~~~~~~~~~~~~--~~~DlL~iDDi~~l~~~------------~~~q~~lf~l~n~~~~~~k~li~ts  137 (219)
T PF00308_consen   72 AEEFIREFADALRDGEIEEFKDRL--RSADLLIIDDIQFLAGK------------QRTQEELFHLFNRLIESGKQLILTS  137 (219)
T ss_dssp             HHHHHHHHHHHHHTTSHHHHHHHH--CTSSEEEEETGGGGTTH------------HHHHHHHHHHHHHHHHTTSEEEEEE
T ss_pred             HHHHHHHHHHHHHcccchhhhhhh--hcCCEEEEecchhhcCc------------hHHHHHHHHHHHHHHhhCCeEEEEe
Confidence            88887654333211 122222222  35569999999998432            2344555555555556677777777


Q ss_pred             cCCCccc---chhccCCCCcc--ceeecCCCCHHHHHHHHHHHhcCCCCCCc-ccHHHHHHhCCCCCHHHHHHHHHHHHH
Q 007255          436 TNRPHAI---DAALMRPGRFD--LVLYVPPPDLEARHEILRVHTRNMKVGDD-VDLRSIAEETELFTGAELEGLCREAGI  509 (611)
Q Consensus       436 tn~~~~l---d~al~r~gRf~--~~i~~~~p~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~g~s~~~i~~~~~~a~~  509 (611)
                      ...|..+   ++.+.+  ||.  ..+.+..|+.++|.+|++......++.-+ .-++.|+....+ +.+++..++.....
T Consensus       138 ~~~P~~l~~~~~~L~S--Rl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~l~~~v~~~l~~~~~~-~~r~L~~~l~~l~~  214 (219)
T PF00308_consen  138 DRPPSELSGLLPDLRS--RLSWGLVVELQPPDDEDRRRILQKKAKERGIELPEEVIEYLARRFRR-DVRELEGALNRLDA  214 (219)
T ss_dssp             SS-TTTTTTS-HHHHH--HHHCSEEEEE----HHHHHHHHHHHHHHTT--S-HHHHHHHHHHTTS-SHHHHHHHHHHHHH
T ss_pred             CCCCccccccChhhhh--hHhhcchhhcCCCCHHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhcC-CHHHHHHHHHHHHH
Confidence            7777754   566666  776  58889999999999999987766655533 346778888775 78888888876554


Q ss_pred             HH
Q 007255          510 VA  511 (611)
Q Consensus       510 ~a  511 (611)
                      .+
T Consensus       215 ~~  216 (219)
T PF00308_consen  215 YA  216 (219)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=99.49  E-value=1.5e-12  Score=133.42  Aligned_cols=205  Identities=22%  Similarity=0.307  Sum_probs=148.1

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~  397 (611)
                      +.+.++||||.|+|||+|++|++++.     +..+++++.+++...++......-..-|+.-.  +-++++|||++.+.+
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y--~~dlllIDDiq~l~g  189 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKY--SLDLLLIDDIQFLAG  189 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHhhhHHHHHHhh--ccCeeeechHhHhcC
Confidence            44569999999999999999999988     45688888888877665554433334455554  556999999999975


Q ss_pred             cCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc---chhccCCCCcc--ceeecCCCCHHHHHHHHHH
Q 007255          398 KRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI---DAALMRPGRFD--LVLYVPPPDLEARHEILRV  472 (611)
Q Consensus       398 ~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l---d~al~r~gRf~--~~i~~~~p~~~~r~~il~~  472 (611)
                      +.            +...+|...+..+...++.+++.+...|.++   ++.|.+  ||.  ..+.+.+|+.+.|..|++.
T Consensus       190 k~------------~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~S--R~~~Gl~~~I~~Pd~e~r~aiL~k  255 (408)
T COG0593         190 KE------------RTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRS--RLEWGLVVEIEPPDDETRLAILRK  255 (408)
T ss_pred             Ch------------hHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHH--HHhceeEEeeCCCCHHHHHHHHHH
Confidence            52            2234444444444566667887777778865   467777  876  7888999999999999998


Q ss_pred             HhcCCCCCC-cccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCCC---CCHHHHHHHHH
Q 007255          473 HTRNMKVGD-DVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPA---LTKEEIDSYSS  547 (611)
Q Consensus       473 ~~~~~~~~~-~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~~---~~~~~~~~~~~  547 (611)
                      .....++.- +.-+..+|..... +.+++..++......+....   +.||.....+++..+...   ++.+.|.+...
T Consensus       256 ka~~~~~~i~~ev~~~la~~~~~-nvReLegaL~~l~~~a~~~~---~~iTi~~v~e~L~~~~~~~~~itie~I~~~Va  330 (408)
T COG0593         256 KAEDRGIEIPDEVLEFLAKRLDR-NVRELEGALNRLDAFALFTK---RAITIDLVKEILKDLLRAGEKITIEDIQKIVA  330 (408)
T ss_pred             HHHhcCCCCCHHHHHHHHHHhhc-cHHHHHHHHHHHHHHHHhcC---ccCcHHHHHHHHHHhhcccccCCHHHHHHHHH
Confidence            665555543 3446778877665 77899998888877776554   578888888888766433   67777655443

>PRK06620 hypothetical protein; Validated

Probab=99.49  E-value=1.3e-12  Score=125.26  Aligned_cols=194  Identities=14%  Similarity=0.145  Sum_probs=124.2

Q ss_pred             CCccccccc-c--hhHHHHHHHHHhhccCCChhHHhhcCCCC-CCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhh
Q 007255          285 PKVTWEDIG-G--LRDLKKKLQQAVEWPIKHSTAFSRLGISP-VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (611)
Q Consensus       285 ~~~~~~~i~-g--~~~~k~~l~~~~~~~~~~~~~~~~~~~~~-~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~  360 (611)
                      +..+|++++ |  .+.+...++++...          ++..+ .+.++||||||||||++++++++..+..++.  ....
T Consensus        11 ~~~tfd~Fvvg~~N~~a~~~~~~~~~~----------~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~--~~~~   78 (214)
T PRK06620         11 SKYHPDEFIVSSSNDQAYNIIKNWQCG----------FGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNAYIIK--DIFF   78 (214)
T ss_pred             CCCCchhhEecccHHHHHHHHHHHHHc----------cccCCCcceEEEECCCCCCHHHHHHHHHhccCCEEcc--hhhh
Confidence            445677754 2  33455555554431          12233 2679999999999999999999888754322  1100


Q ss_pred             ccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCc
Q 007255          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH  440 (611)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~  440 (611)
                                 ....+     ...++++|||||.+-              ...+-.+++.+   ...++.++|+++..|.
T Consensus        79 -----------~~~~~-----~~~d~lliDdi~~~~--------------~~~lf~l~N~~---~e~g~~ilits~~~p~  125 (214)
T PRK06620         79 -----------NEEIL-----EKYNAFIIEDIENWQ--------------EPALLHIFNII---NEKQKYLLLTSSDKSR  125 (214)
T ss_pred             -----------chhHH-----hcCCEEEEeccccch--------------HHHHHHHHHHH---HhcCCEEEEEcCCCcc
Confidence                       00111     234699999999541              12233444444   3556788888887777


Q ss_pred             c--cchhccCCCCcc--ceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhh
Q 007255          441 A--IDAALMRPGRFD--LVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALRED  515 (611)
Q Consensus       441 ~--ld~al~r~gRf~--~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~  515 (611)
                      .  + +++++  |+.  .++.+..|+.+++..+++......++. ++.-++.|+....| +.+.+.+++......+..  
T Consensus       126 ~l~l-~~L~S--Rl~~gl~~~l~~pd~~~~~~~l~k~~~~~~l~l~~ev~~~L~~~~~~-d~r~l~~~l~~l~~~~~~--  199 (214)
T PRK06620        126 NFTL-PDLSS--RIKSVLSILLNSPDDELIKILIFKHFSISSVTISRQIIDFLLVNLPR-EYSKIIEILENINYFALI--  199 (214)
T ss_pred             ccch-HHHHH--HHhCCceEeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccC-CHHHHHHHHHHHHHHHHH--
Confidence            5  4 67776  876  578999999999999998776654443 44557889998887 788888888765433332  


Q ss_pred             cccccccHHHHHHHH
Q 007255          516 ISATAVRNRHFQTVK  530 (611)
Q Consensus       516 ~~~~~i~~~~~~~~l  530 (611)
                       ..++|+...+..++
T Consensus       200 -~~~~it~~~~~~~l  213 (214)
T PRK06620        200 -SKRKITISLVKEVL  213 (214)
T ss_pred             -cCCCCCHHHHHHHh
Confidence             23557766665554

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.48  E-value=9.9e-13  Score=138.55  Aligned_cols=194  Identities=15%  Similarity=0.206  Sum_probs=128.4

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE----------
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV----------   83 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~----------   83 (611)
                      ....|++|+|++.+++.|..++..            -+.+..+||+||||+|||++|+.+|+.+.+.-..          
T Consensus        11 RP~~~~eiiGq~~~~~~L~~~~~~------------~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~   78 (397)
T PRK14955         11 RPKKFADITAQEHITRTIQNSLRM------------GRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVT   78 (397)
T ss_pred             CCCcHhhccChHHHHHHHHHHHHh------------CCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCC
Confidence            345679999999999999887753            1345679999999999999999999999763100          


Q ss_pred             Eccc--------------ccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHH
Q 007255           84 ISPH--------------SVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLF  147 (611)
Q Consensus        84 v~~~--------------~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll  147 (611)
                      -.|.              ++.  ..........++.+.+.....+..+...|++|||+|.+..          ..++.|+
T Consensus        79 ~~c~~c~~c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~----------~~~~~LL  148 (397)
T PRK14955         79 EPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSI----------AAFNAFL  148 (397)
T ss_pred             CCCCCCHHHHHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCH----------HHHHHHH
Confidence            0000              000  0000011344555555554444455667999999998853          3466788


Q ss_pred             HHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhcc
Q 007255          148 TLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCN  226 (611)
Q Consensus       148 ~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~  226 (611)
                      ..++..      ++.+++|.+|+....+.+.+++  |+. .+.|++++.++..+.++..++..+.. .+..+..++..+.
T Consensus       149 k~LEep------~~~t~~Il~t~~~~kl~~tl~s--R~~-~v~f~~l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~~s~  219 (397)
T PRK14955        149 KTLEEP------PPHAIFIFATTELHKIPATIAS--RCQ-RFNFKRIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQ  219 (397)
T ss_pred             HHHhcC------CCCeEEEEEeCChHHhHHHHHH--HHH-HhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            888752      2245666666777888899988  775 78999999999999998887655433 2234677777666


Q ss_pred             CCccccHHHHHHH
Q 007255          227 GYVGADLEALCRE  239 (611)
Q Consensus       227 g~~~~dl~~l~~~  239 (611)
                      |. .+.+.+.++.
T Consensus       220 g~-lr~a~~~L~k  231 (397)
T PRK14955        220 GS-MRDAQSILDQ  231 (397)
T ss_pred             CC-HHHHHHHHHH
Confidence            53 3333333333

>PRK05642 DNA replication initiation factor; Validated

Probab=99.48  E-value=7.7e-13  Score=129.04  Aligned_cols=179  Identities=18%  Similarity=0.168  Sum_probs=122.6

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCC
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRG  400 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~  400 (611)
                      .+.++||||+|||||+|++++++++   +..+++++..++....        ..+.+..+  ..++|+|||++.+.++. 
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~~--------~~~~~~~~--~~d~LiiDDi~~~~~~~-  113 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDRG--------PELLDNLE--QYELVCLDDLDVIAGKA-  113 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhhh--------HHHHHhhh--hCCEEEEechhhhcCCh-
Confidence            3578999999999999999999765   5678888887775421        22223332  23599999999874331 


Q ss_pred             CCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc---chhccCCCCcc--ceeecCCCCHHHHHHHHHHHhc
Q 007255          401 GSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI---DAALMRPGRFD--LVLYVPPPDLEARHEILRVHTR  475 (611)
Q Consensus       401 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l---d~al~r~gRf~--~~i~~~~p~~~~r~~il~~~~~  475 (611)
                                 .....|...++.....++.++|+++..|..+   .+.+.+  ||.  ..+.+..|+.++|..+++....
T Consensus       114 -----------~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~S--Rl~~gl~~~l~~~~~e~~~~il~~ka~  180 (234)
T PRK05642        114 -----------DWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKS--RLTLALVFQMRGLSDEDKLRALQLRAS  180 (234)
T ss_pred             -----------HHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHH--HHhcCeeeecCCCCHHHHHHHHHHHHH
Confidence                       1223444444444456677888777777643   577777  884  6777899999999999995544


Q ss_pred             CCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          476 NMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       476 ~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      ...+. ++.-++.|++..++ +.+.+..++......+...   .++||..-+.+++
T Consensus       181 ~~~~~l~~ev~~~L~~~~~~-d~r~l~~~l~~l~~~~l~~---~~~it~~~~~~~L  232 (234)
T PRK05642        181 RRGLHLTDEVGHFILTRGTR-SMSALFDLLERLDQASLQA---QRKLTIPFLKETL  232 (234)
T ss_pred             HcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHHc---CCcCCHHHHHHHh
Confidence            43332 34557889998887 8888888888665444332   3667776666554

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.48  E-value=1.7e-12  Score=142.53  Aligned_cols=191  Identities=21%  Similarity=0.254  Sum_probs=134.1

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE----ccc----
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI----SPH----   87 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v----~~~----   87 (611)
                      ..|++++|++.+++.|..++..            .+.+.++||+||+|+|||++|+++|+.+++.....    .|.    
T Consensus        13 ~~f~~liGq~~i~~~L~~~l~~------------~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~   80 (620)
T PRK14948         13 QRFDELVGQEAIATTLKNALIS------------NRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCEL   80 (620)
T ss_pred             CcHhhccChHHHHHHHHHHHHc------------CCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHH
Confidence            6789999999999999998754            12346899999999999999999999987631100    000    


Q ss_pred             ----------ccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCC
Q 007255           88 ----------SVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP  155 (611)
Q Consensus        88 ----------~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~  155 (611)
                                ++.  ..........++++.+.+......+...|++|||+|.|..          ..++.|+..+++   
T Consensus        81 C~~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~----------~a~naLLK~LEe---  147 (620)
T PRK14948         81 CRAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLST----------AAFNALLKTLEE---  147 (620)
T ss_pred             HHHHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCH----------HHHHHHHHHHhc---
Confidence                      010  1111233456777777766555456677999999998843          567889999986   


Q ss_pred             CCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCccccHH
Q 007255          156 SKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLE  234 (611)
Q Consensus       156 ~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~~~dl~  234 (611)
                         .+..+++|++|+.++.+.+.+++  |+. .+.|..++.++....+...+...+..- ...+..++..+.|.. +++.
T Consensus       148 ---Pp~~tvfIL~t~~~~~llpTIrS--Rc~-~~~f~~l~~~ei~~~L~~ia~kegi~is~~al~~La~~s~G~l-r~A~  220 (620)
T PRK14948        148 ---PPPRVVFVLATTDPQRVLPTIIS--RCQ-RFDFRRIPLEAMVQHLSEIAEKESIEIEPEALTLVAQRSQGGL-RDAE  220 (620)
T ss_pred             ---CCcCeEEEEEeCChhhhhHHHHh--hee-EEEecCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCH-HHHH
Confidence               33357777778888889999998  874 789999999998888877766544332 234777777776643 4444


Q ss_pred             HHHH
Q 007255          235 ALCR  238 (611)
Q Consensus       235 ~l~~  238 (611)
                      ++++
T Consensus       221 ~lLe  224 (620)
T PRK14948        221 SLLD  224 (620)
T ss_pred             HHHH
Confidence            4444

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.48  E-value=1.9e-12  Score=137.80  Aligned_cols=175  Identities=21%  Similarity=0.283  Sum_probs=123.9

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---------------   80 (611)
                      ..|++|+|++.+++.|...+..            -+.+..+||+||+|+|||++|+.+|+.+.+.               
T Consensus        14 ~~~~diiGq~~~v~~L~~~i~~------------~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C   81 (451)
T PRK06305         14 QTFSEILGQDAVVAVLKNALRF------------NRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASC   81 (451)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc------------CCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHH
Confidence            6779999999999999988753            1345679999999999999999999988543               


Q ss_pred             ----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHH
Q 007255           81 ----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (611)
Q Consensus        81 ----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l  150 (611)
                                ++.++...      ......++.+.+........+...|++|||+|.+..          ..++.|+..+
T Consensus        82 ~~i~~~~~~d~~~i~g~~------~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~----------~~~n~LLk~l  145 (451)
T PRK06305         82 KEISSGTSLDVLEIDGAS------HRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTK----------EAFNSLLKTL  145 (451)
T ss_pred             HHHhcCCCCceEEeeccc------cCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCH----------HHHHHHHHHh
Confidence                      11111100      011233444333333333345678999999998853          4567888888


Q ss_pred             hcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccC
Q 007255          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNG  227 (611)
Q Consensus       151 ~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g  227 (611)
                      +..      ++.+++|.+|+.+..+.+.+++  |+. .+.|+.++.++...++...++..+...+ ..+..++..++|
T Consensus       146 Eep------~~~~~~Il~t~~~~kl~~tI~s--Rc~-~v~f~~l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~s~g  214 (451)
T PRK06305        146 EEP------PQHVKFFLATTEIHKIPGTILS--RCQ-KMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARAAQG  214 (451)
T ss_pred             hcC------CCCceEEEEeCChHhcchHHHH--hce-EEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Confidence            863      2346777777888899999998  885 7999999999999999887766554322 346777776654

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.48  E-value=1.8e-12  Score=134.54  Aligned_cols=188  Identities=24%  Similarity=0.323  Sum_probs=123.3

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC-----CcEEEEcccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG-----AHLTVISPHSVH   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~-----~~~~~v~~~~~~   90 (611)
                      ..|++++|++++++.|..++..+             ...+++|+||||||||++++++++++.     .+++.++++++.
T Consensus        12 ~~~~~~~g~~~~~~~L~~~~~~~-------------~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~   78 (337)
T PRK12402         12 ALLEDILGQDEVVERLSRAVDSP-------------NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFF   78 (337)
T ss_pred             CcHHHhcCCHHHHHHHHHHHhCC-------------CCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhh
Confidence            56799999999999998877431             224799999999999999999999884     346777776643


Q ss_pred             cccc-------------cc-------hHHHHHHHHHHHHhh-hhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHH
Q 007255           91 KAHV-------------GE-------SEKALREAFSQASSH-ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (611)
Q Consensus        91 ~~~~-------------~~-------~~~~l~~~f~~~~~~-~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~  149 (611)
                      ....             +.       ....++.+....... +....+.+|+|||+|.+..          ..+..|...
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~----------~~~~~L~~~  148 (337)
T PRK12402         79 DQGKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALRE----------DAQQALRRI  148 (337)
T ss_pred             hcchhhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCH----------HHHHHHHHH
Confidence            2110             00       011222222222111 1123456999999998743          345567777


Q ss_pred             HhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCC
Q 007255          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGY  228 (611)
Q Consensus       150 l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~  228 (611)
                      ++....      ...+|.+++.+..+.+.+++  |+ ..+.+++|+.+++..+++..+...+.. .+..++.++..+.  
T Consensus       149 le~~~~------~~~~Il~~~~~~~~~~~L~s--r~-~~v~~~~~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~~~--  217 (337)
T PRK12402        149 MEQYSR------TCRFIIATRQPSKLIPPIRS--RC-LPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAG--  217 (337)
T ss_pred             HHhccC------CCeEEEEeCChhhCchhhcC--Cc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC--
Confidence            775432      23455566666677788887  76 478999999999999999888766544 2334777777663  


Q ss_pred             ccccHHHHHHH
Q 007255          229 VGADLEALCRE  239 (611)
Q Consensus       229 ~~~dl~~l~~~  239 (611)
                        +++..++..
T Consensus       218 --gdlr~l~~~  226 (337)
T PRK12402        218 --GDLRKAILT  226 (337)
T ss_pred             --CCHHHHHHH
Confidence              345444443

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.47  E-value=1.4e-12  Score=143.81  Aligned_cols=228  Identities=23%  Similarity=0.344  Sum_probs=135.3

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEE
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVI   84 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v   84 (611)
                      ...|++++|++..++.+.+.+..             ..+.+++|+||||||||++++.+++..          +.+++.+
T Consensus       150 p~~~~~iiGqs~~~~~l~~~ia~-------------~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i  216 (615)
T TIGR02903       150 PRAFSEIVGQERAIKALLAKVAS-------------PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEV  216 (615)
T ss_pred             cCcHHhceeCcHHHHHHHHHHhc-------------CCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEE
Confidence            36789999999999987655422             235689999999999999999998765          3468888


Q ss_pred             cccccccc-------cccchHH----HHHHHHHHH------HhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHH
Q 007255           85 SPHSVHKA-------HVGESEK----ALREAFSQA------SSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLF  147 (611)
Q Consensus        85 ~~~~~~~~-------~~~~~~~----~l~~~f~~~------~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll  147 (611)
                      ++..+...       ..+....    ..+..+...      ........+++|||||++.|.+          ..+..|+
T Consensus       217 ~~~~l~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~----------~~Q~~Ll  286 (615)
T TIGR02903       217 DGTTLRWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDP----------LLQNKLL  286 (615)
T ss_pred             echhccCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCH----------HHHHHHH
Confidence            87765210       1111000    000001000      0000112357999999988754          5577777


Q ss_pred             HHHhcCCC----------------------CCCCCCcEEEEEe-ecCcccccHHhhccCCcceEEEccCCCHHHHHHHHH
Q 007255          148 TLMDSNKP----------------------SKTSVPHVVVVAS-TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILK  204 (611)
Q Consensus       148 ~~l~~~~~----------------------~~~~~~~v~ii~t-tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~  204 (611)
                      ..++....                      ....+..+++|++ ++.++.+++++++  ||. .+.+++++.+++..|++
T Consensus       287 ~~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrS--R~~-~i~~~pls~edi~~Il~  363 (615)
T TIGR02903       287 KVLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRS--RCA-EVFFEPLTPEDIALIVL  363 (615)
T ss_pred             HHHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHh--cee-EEEeCCCCHHHHHHHHH
Confidence            77765320                      0112234566654 5567889999998  886 78999999999999999


Q ss_pred             HhhcCCCCCCccc-HHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHh
Q 007255          205 LYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARS  270 (611)
Q Consensus       205 ~~~~~~~~~~~~~-~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~  270 (611)
                      ..+.......+.+ ++.++..+.  .++...+.+..+...+..+............++.+|+..+..
T Consensus       364 ~~a~~~~v~ls~eal~~L~~ys~--~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~  428 (615)
T TIGR02903       364 NAAEKINVHLAAGVEELIARYTI--EGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQ  428 (615)
T ss_pred             HHHHHcCCCCCHHHHHHHHHCCC--cHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhC
Confidence            9887654332222 344444332  344444444444333222221001112234677788777654

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=99.47  E-value=3.6e-13  Score=123.93  Aligned_cols=186  Identities=20%  Similarity=0.275  Sum_probs=130.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh-C----CcEEEEcccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-G----AHLTVISPHSVH   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l-~----~~~~~v~~~~~~   90 (611)
                      ..+.||+|+++.++.|..+...             ..-.|+++.|||||||||-+.++|+++ |    -.+.++++++-.
T Consensus        24 ~~l~dIVGNe~tv~rl~via~~-------------gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeR   90 (333)
T KOG0991|consen   24 SVLQDIVGNEDTVERLSVIAKE-------------GNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDER   90 (333)
T ss_pred             hHHHHhhCCHHHHHHHHHHHHc-------------CCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCcccc
Confidence            5689999999999999877533             133699999999999999999999987 3    235677777533


Q ss_pred             cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeec
Q 007255           91 KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn  170 (611)
                      ..   +..+.-.+.|.+-+-....++..|+++||+|++..          ..++.|.+.|+-+..+      ..+..+||
T Consensus        91 GI---DvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~----------gAQQAlRRtMEiyS~t------tRFalaCN  151 (333)
T KOG0991|consen   91 GI---DVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMTA----------GAQQALRRTMEIYSNT------TRFALACN  151 (333)
T ss_pred             cc---HHHHHHHHHHHHhhccCCCCceeEEEeeccchhhh----------HHHHHHHHHHHHHccc------chhhhhhc
Confidence            21   22334445666666555456677999999998854          5678888888876553      35778899


Q ss_pred             CcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCccccHHHH
Q 007255          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEAL  236 (611)
Q Consensus       171 ~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~~~dl~~l  236 (611)
                      ..+.+-+.+.+  |+. .+.+...+..+...-+....+...... +..++.+.-..+|-....+.++
T Consensus       152 ~s~KIiEPIQS--RCA-iLRysklsd~qiL~Rl~~v~k~Ekv~yt~dgLeaiifta~GDMRQalNnL  215 (333)
T KOG0991|consen  152 QSEKIIEPIQS--RCA-ILRYSKLSDQQILKRLLEVAKAEKVNYTDDGLEAIIFTAQGDMRQALNNL  215 (333)
T ss_pred             chhhhhhhHHh--hhH-hhhhcccCHHHHHHHHHHHHHHhCCCCCcchHHHhhhhccchHHHHHHHH
Confidence            99999999998  885 667777777766655555544433332 2246777666666544444443

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=99.47  E-value=1.3e-12  Score=145.42  Aligned_cols=184  Identities=23%  Similarity=0.333  Sum_probs=124.0

Q ss_pred             ccccccCCcHHHHH---HHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccc
Q 007255           16 KAEEAIGGNRAAVE---ALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA   92 (611)
Q Consensus        16 ~~~~~i~G~~~~~~---~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~   92 (611)
                      +.|++++|++..+.   .|.+++..             ....+++|+||||||||++++++++.++..++.+++....  
T Consensus        25 ~tldd~vGQe~ii~~~~~L~~~i~~-------------~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~~--   89 (725)
T PRK13341         25 RTLEEFVGQDHILGEGRLLRRAIKA-------------DRVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAG--   89 (725)
T ss_pred             CcHHHhcCcHHHhhhhHHHHHHHhc-------------CCCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhhh--
Confidence            78999999999985   45555432             1335899999999999999999999999988888865321  


Q ss_pred             cccchHHHHHHHHHHHHhhh-hcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC
Q 007255           93 HVGESEKALREAFSQASSHA-LSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (611)
Q Consensus        93 ~~~~~~~~l~~~f~~~~~~~-~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~  171 (611)
                           ...++..+..+.... ..++..+|||||+|.+..          ..+..|+..++.        +.+++|++|+.
T Consensus        90 -----i~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~----------~qQdaLL~~lE~--------g~IiLI~aTTe  146 (725)
T PRK13341         90 -----VKDLRAEVDRAKERLERHGKRTILFIDEVHRFNK----------AQQDALLPWVEN--------GTITLIGATTE  146 (725)
T ss_pred             -----hHHHHHHHHHHHHHhhhcCCceEEEEeChhhCCH----------HHHHHHHHHhcC--------ceEEEEEecCC
Confidence                 112333333332111 123467999999998743          335667776654        14667766543


Q ss_pred             --cccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcC-------CCCC-CcccHHHHHHhccCCccccHHHHHHHHH
Q 007255          172 --VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK-------VPLD-ANVDLEAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       172 --~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~-------~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                        ...+++++.+  |+ ..+.|++++.+++..+++..+..       .... .+..+..++..+.| ..+.+.++++.+.
T Consensus       147 np~~~l~~aL~S--R~-~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~G-D~R~lln~Le~a~  222 (725)
T PRK13341        147 NPYFEVNKALVS--RS-RLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANG-DARSLLNALELAV  222 (725)
T ss_pred             ChHhhhhhHhhc--cc-cceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence              3578899998  76 47899999999999999987762       1222 22236777776644 3455555555544

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.47  E-value=7.1e-12  Score=133.02  Aligned_cols=224  Identities=24%  Similarity=0.276  Sum_probs=138.2

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccccc-
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKA-   92 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~~~-   92 (611)
                      +.++|.++..+.|...+...+.         -..+.+++++||||||||++++.+++++     +..++++++...... 
T Consensus        30 ~~l~~Re~e~~~l~~~l~~~~~---------~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~  100 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALR---------GSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRY  100 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhC---------CCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHH
Confidence            5689999999999998854221         1245679999999999999999999887     466888887643210 


Q ss_pred             ---------ccc----chHHHHHHHHHHHHhhh-hcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCC
Q 007255           93 ---------HVG----ESEKALREAFSQASSHA-LSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKT  158 (611)
Q Consensus        93 ---------~~~----~~~~~l~~~f~~~~~~~-~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  158 (611)
                               ..+    ........++....... ..+++.||+|||+|.+....      ....+..++..++....   
T Consensus       101 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~------~~~~l~~l~~~~~~~~~---  171 (394)
T PRK00411        101 AIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKE------GNDVLYSLLRAHEEYPG---  171 (394)
T ss_pred             HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccC------CchHHHHHHHhhhccCC---
Confidence                     000    00001122222222111 12456899999999987211      11345666666554321   


Q ss_pred             CCCcEEEEEeecCcc---cccHHhhccCCcc-eEEEccCCCHHHHHHHHHHhhcCCC---CCCcccHHHHHHhccCCcc-
Q 007255          159 SVPHVVVVASTNRVD---AIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKVP---LDANVDLEAIATSCNGYVG-  230 (611)
Q Consensus       159 ~~~~v~ii~ttn~~~---~l~~~l~~~~Rf~-~~i~~~~p~~~~r~~Il~~~~~~~~---~~~~~~~~~la~~~~g~~~-  230 (611)
                        .++.+|+++|..+   .+++.+.+  ||. ..+.|++++.++..+|++..+....   .-.+..++.+++.+.+..| 
T Consensus       172 --~~v~vI~i~~~~~~~~~l~~~~~s--~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd  247 (394)
T PRK00411        172 --ARIGVIGISSDLTFLYILDPRVKS--VFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGD  247 (394)
T ss_pred             --CeEEEEEEECCcchhhhcCHHHHh--cCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCc
Confidence              1577888887753   57788877  553 5789999999999999998775321   1122335666666643222 


Q ss_pred             -ccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhcc
Q 007255          231 -ADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       231 -~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i  272 (611)
                       +.+..++..|...+..+.        ...++.+++..+...+
T Consensus       248 ~r~a~~ll~~a~~~a~~~~--------~~~I~~~~v~~a~~~~  282 (394)
T PRK00411        248 ARVAIDLLRRAGLIAEREG--------SRKVTEEDVRKAYEKS  282 (394)
T ss_pred             HHHHHHHHHHHHHHHHHcC--------CCCcCHHHHHHHHHHH
Confidence             333456666655554332        2246777777665543

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.46  E-value=3.8e-12  Score=136.68  Aligned_cols=171  Identities=23%  Similarity=0.347  Sum_probs=109.5

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      .++++|+||||||||+|++++++++     +..++++++.++..............-|....     ....+|+|||+|.
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~dlLiiDDi~~  222 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDFVNALRNNTMEEFKEKY-----RSVDVLLIDDIQF  222 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHcCcHHHHHHHH-----hcCCEEEEehhhh
Confidence            3679999999999999999999987     45678888877654332211111111122111     1356999999998


Q ss_pred             cCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc---ccHHhhccCCcc--eEEEccCCCHHHHHHH
Q 007255          128 LCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA---IDPALRRSGRFD--AEVEVTVPTAEERFEI  202 (611)
Q Consensus       128 l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~---l~~~l~~~~Rf~--~~i~~~~p~~~~r~~I  202 (611)
                      +....        ..+..++..++......    ..++|++..+|..   +++++.+  ||.  ..+.+.+|+.++|.+|
T Consensus       223 l~~~~--------~~~~~l~~~~n~l~~~~----~~iiits~~~p~~l~~l~~~l~S--Rl~~gl~v~i~~pd~~~r~~i  288 (450)
T PRK00149        223 LAGKE--------RTQEEFFHTFNALHEAG----KQIVLTSDRPPKELPGLEERLRS--RFEWGLTVDIEPPDLETRIAI  288 (450)
T ss_pred             hcCCH--------HHHHHHHHHHHHHHHCC----CcEEEECCCCHHHHHHHHHHHHh--HhcCCeeEEecCCCHHHHHHH
Confidence            85432        23344555544332211    2355655555554   6799988  874  5799999999999999


Q ss_pred             HHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHHH
Q 007255          203 LKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMS  243 (611)
Q Consensus       203 l~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~~  243 (611)
                      ++..+...+.. .+..++.++..+.| +.+.+..++......
T Consensus       289 l~~~~~~~~~~l~~e~l~~ia~~~~~-~~R~l~~~l~~l~~~  329 (450)
T PRK00149        289 LKKKAEEEGIDLPDEVLEFIAKNITS-NVRELEGALNRLIAY  329 (450)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHcCcCC-CHHHHHHHHHHHHHH
Confidence            99988765443 23347777776654 455566665554433

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.46  E-value=5.2e-12  Score=137.44  Aligned_cols=181  Identities=20%  Similarity=0.240  Sum_probs=117.6

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEcccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVISPHS   88 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~~~~   88 (611)
                      +.|.|.++.++.|..++...+.        |..++..++++|+||||||++++.+++++          ...+++++|..
T Consensus       755 D~LPhREeEIeeLasfL~paIk--------gsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~  826 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIK--------QSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMN  826 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHh--------cCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCc
Confidence            6799999999999998865332        11233445799999999999999998776          14578888854


Q ss_pred             ccccc--------------c--c-chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh
Q 007255           89 VHKAH--------------V--G-ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (611)
Q Consensus        89 ~~~~~--------------~--~-~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~  151 (611)
                      +....              +  + .....+..+|......  .....||+|||||.|....       ..++..|+++..
T Consensus       827 Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~--~r~v~IIILDEID~L~kK~-------QDVLYnLFR~~~  897 (1164)
T PTZ00112        827 VVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKD--NRNVSILIIDEIDYLITKT-------QKVLFTLFDWPT  897 (1164)
T ss_pred             cCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcc--cccceEEEeehHhhhCccH-------HHHHHHHHHHhh
Confidence            32211              0  1 1223444555443211  1235699999999997531       133333444322


Q ss_pred             cCCCCCCCCCcEEEEEeecC---cccccHHhhccCCcce-EEEccCCCHHHHHHHHHHhhcCCC-CCCcccHHHHHHh
Q 007255          152 SNKPSKTSVPHVVVVASTNR---VDAIDPALRRSGRFDA-EVEVTVPTAEERFEILKLYTKKVP-LDANVDLEAIATS  224 (611)
Q Consensus       152 ~~~~~~~~~~~v~ii~ttn~---~~~l~~~l~~~~Rf~~-~i~~~~p~~~~r~~Il~~~~~~~~-~~~~~~~~~la~~  224 (611)
                         .   ....+.+|+.+|.   ++.+++++++  ||.. .+.|++|+.+++.+|++..+.... .-.+.-++.+|+.
T Consensus       898 ---~---s~SKLiLIGISNdlDLperLdPRLRS--RLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArk  967 (1164)
T PTZ00112        898 ---K---INSKLVLIAISNTMDLPERLIPRCRS--RLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARK  967 (1164)
T ss_pred             ---c---cCCeEEEEEecCchhcchhhhhhhhh--ccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHh
Confidence               1   1236889999987   4577889988  6643 589999999999999999887542 1122235555553

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.45  E-value=4.4e-12  Score=138.57  Aligned_cols=183  Identities=15%  Similarity=0.216  Sum_probs=127.3

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE----------E
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV----------I   84 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~----------v   84 (611)
                      ...|++|+|++.+++.|...+..            -+.+..+||+||+|||||++|+.+|+.+++.-..          -
T Consensus        12 P~~f~eivGQe~i~~~L~~~i~~------------~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~   79 (620)
T PRK14954         12 PSKFADITAQEHITHTIQNSLRM------------DRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTE   79 (620)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc------------CCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCC
Confidence            35679999999999999887743            1345679999999999999999999999763100          0


Q ss_pred             ccc------cc------c-ccccc---chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHH
Q 007255           85 SPH------SV------H-KAHVG---ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFT  148 (611)
Q Consensus        85 ~~~------~~------~-~~~~~---~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~  148 (611)
                      .|.      .+      . ....+   .....++.+.+.....+..+...|++|||+|.|..          ..++.|+.
T Consensus        80 ~Cg~C~sC~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~----------~a~naLLK  149 (620)
T PRK14954         80 PCGECESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLST----------AAFNAFLK  149 (620)
T ss_pred             CCccCHHHHHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCH----------HHHHHHHH
Confidence            000      00      0 00011   11345555555554444455677999999998843          44678899


Q ss_pred             HHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccC
Q 007255          149 LMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNG  227 (611)
Q Consensus       149 ~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g  227 (611)
                      .++.-      ++.+++|.+|+....+.+.+++  |+ ..+.|..++.++....+...+...+.. .+..+..++..++|
T Consensus       150 ~LEeP------p~~tv~IL~t~~~~kLl~TI~S--Rc-~~vef~~l~~~ei~~~L~~i~~~egi~I~~eal~~La~~s~G  220 (620)
T PRK14954        150 TLEEP------PPHAIFIFATTELHKIPATIAS--RC-QRFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQG  220 (620)
T ss_pred             HHhCC------CCCeEEEEEeCChhhhhHHHHh--hc-eEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCC
Confidence            98873      2345666667777899999998  87 489999999999999888877655433 23347778887766


Q ss_pred             C
Q 007255          228 Y  228 (611)
Q Consensus       228 ~  228 (611)
                      .
T Consensus       221 d  221 (620)
T PRK14954        221 S  221 (620)
T ss_pred             C
Confidence            3

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.42  E-value=4.4e-12  Score=126.03  Aligned_cols=132  Identities=23%  Similarity=0.312  Sum_probs=93.2

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecc------hhhccccccchHHH-HHH-------------------HHHH
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSG------AELYSMYVGESEAL-LRN-------------------TFQR  378 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~------~~~~~~~~g~~~~~-~~~-------------------~~~~  378 (611)
                      .++||+||||||||++|+++|..+|.+++.+++      +++.+.+.+..... ...                   .+-.
T Consensus        22 ~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~l~~  101 (262)
T TIGR02640        22 YPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDIVRQNWVDNRLTL  101 (262)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcccceeecCchHHH
Confidence            569999999999999999999999999998865      34444443321111 110                   0111


Q ss_pred             HHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--------------CCCCeEEEEecCCCc----
Q 007255          379 ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--------------QAKGILVLAATNRPH----  440 (611)
Q Consensus       379 a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------------~~~~~~vI~~tn~~~----  440 (611)
                      |. ..+.+++|||++.+              .....+.|+..|+.-.              ....+.+|+|+|...    
T Consensus       102 A~-~~g~~lllDEi~r~--------------~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~~~~g~  166 (262)
T TIGR02640       102 AV-REGFTLVYDEFTRS--------------KPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPVEYAGV  166 (262)
T ss_pred             HH-HcCCEEEEcchhhC--------------CHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCccccce
Confidence            11 23459999999976              2456677777775311              223678999999763    


Q ss_pred             -ccchhccCCCCccceeecCCCCHHHHHHHHHHHh
Q 007255          441 -AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHT  474 (611)
Q Consensus       441 -~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~  474 (611)
                       .+++++++  ||- .+.++.|+.++-.+|++.+.
T Consensus       167 ~~l~~aL~~--R~~-~i~i~~P~~~~e~~Il~~~~  198 (262)
T TIGR02640       167 HETQDALLD--RLI-TIFMDYPDIDTETAILRAKT  198 (262)
T ss_pred             ecccHHHHh--hcE-EEECCCCCHHHHHHHHHHhh
Confidence             56889998  985 89999999999999998654

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.42  E-value=4.1e-12  Score=129.34  Aligned_cols=157  Identities=18%  Similarity=0.209  Sum_probs=112.4

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCc------------------------EEeecchhhccccccchHHHHHHHHH
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEAS------------------------FFSLSGAELYSMYVGESEALLRNTFQ  377 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------------------------~~~~~~~~~~~~~~g~~~~~~~~~~~  377 (611)
                      +.++++||+||+|+|||++|+++|+.+.|.                        ++.+.+.+- +  ..-.-..++.+.+
T Consensus        20 r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~-~--~~i~id~iR~l~~   96 (328)
T PRK05707         20 RHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEA-D--KTIKVDQVRELVS   96 (328)
T ss_pred             CcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCC-C--CCCCHHHHHHHHH
Confidence            557889999999999999999999998653                        222222100 0  0012345666555


Q ss_pred             HHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCcc
Q 007255          378 RARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFD  453 (611)
Q Consensus       378 ~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~  453 (611)
                      .+..    ....|++||++|.+              +....|.||+.|+  ++++++++|.+|+.++.+.|.+++  |+.
T Consensus        97 ~~~~~~~~~~~kv~iI~~a~~m--------------~~~aaNaLLK~LE--EPp~~~~fiL~t~~~~~ll~TI~S--Rc~  158 (328)
T PRK05707         97 FVVQTAQLGGRKVVLIEPAEAM--------------NRNAANALLKSLE--EPSGDTVLLLISHQPSRLLPTIKS--RCQ  158 (328)
T ss_pred             HHhhccccCCCeEEEECChhhC--------------CHHHHHHHHHHHh--CCCCCeEEEEEECChhhCcHHHHh--hce
Confidence            5443    33459999999987              3567899999999  678899999999999999999998  998


Q ss_pred             ceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHH
Q 007255          454 LVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLC  504 (611)
Q Consensus       454 ~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~  504 (611)
                       .+.|++|+.++..+.+.....   ...+.+...++..+.| ++.....+.
T Consensus       159 -~~~~~~~~~~~~~~~L~~~~~---~~~~~~~~~~l~la~G-sp~~A~~l~  204 (328)
T PRK05707        159 -QQACPLPSNEESLQWLQQALP---ESDERERIELLTLAGG-SPLRALQLH  204 (328)
T ss_pred             -eeeCCCcCHHHHHHHHHHhcc---cCChHHHHHHHHHcCC-CHHHHHHHH
Confidence             699999999988888874431   1233445667777777 455444443

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.42  E-value=7.7e-12  Score=137.94  Aligned_cols=192  Identities=21%  Similarity=0.270  Sum_probs=129.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE---Eccc-----
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV---ISPH-----   87 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~---v~~~-----   87 (611)
                      ..|++|+|++.+++.|..++..            -+.+..+||+||+|+|||++++.+|+.+++....   -.|.     
T Consensus        13 ~~~~eiiGq~~~~~~L~~~i~~------------~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c   80 (585)
T PRK14950         13 QTFAELVGQEHVVQTLRNAIAE------------GRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMC   80 (585)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHh------------CCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHH
Confidence            6789999999999999888753            1234568999999999999999999998642210   0000     


Q ss_pred             ---------ccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC
Q 007255           88 ---------SVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS  156 (611)
Q Consensus        88 ---------~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~  156 (611)
                               ++.  +.........++.+.+.+..........|++|||+|.|..          ..++.|+..++...  
T Consensus        81 ~~i~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~----------~a~naLLk~LEepp--  148 (585)
T PRK14950         81 RAIAEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLST----------AAFNALLKTLEEPP--  148 (585)
T ss_pred             HHHhcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCH----------HHHHHHHHHHhcCC--
Confidence                     000  0000112334555554444443445567999999998743          45677888888632  


Q ss_pred             CCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCccccHHH
Q 007255          157 KTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEA  235 (611)
Q Consensus       157 ~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~~dl~~  235 (611)
                          .++++|.+++..+.+.+.+++  |+. .+.|+.++..+...+++..+...+...+ ..+..++..+.| +.+++.+
T Consensus       149 ----~~tv~Il~t~~~~kll~tI~S--R~~-~i~f~~l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~G-dlr~al~  220 (585)
T PRK14950        149 ----PHAIFILATTEVHKVPATILS--RCQ-RFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATG-SMRDAEN  220 (585)
T ss_pred             ----CCeEEEEEeCChhhhhHHHHh--ccc-eeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHH
Confidence                346677777777888899988  874 7899999999999999888766554322 346777777765 4444545


Q ss_pred             HHHH
Q 007255          236 LCRE  239 (611)
Q Consensus       236 l~~~  239 (611)
                      .++.
T Consensus       221 ~Lek  224 (585)
T PRK14950        221 LLQQ  224 (585)
T ss_pred             HHHH
Confidence            4443

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=99.42  E-value=4.3e-12  Score=142.27  Aligned_cols=140  Identities=24%  Similarity=0.339  Sum_probs=102.3

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc--ccccc----chHH---HHHHHHHHHHhhhhcCCCeEEEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH--KAHVG----ESEK---ALREAFSQASSHALSGKPSVVFI  122 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~--~~~~~----~~~~---~l~~~f~~~~~~~~~~~~~il~I  122 (611)
                      ..-++|+.||+.+|||+.+.++|++.|..|+.++-++-.  ..|.|    ....   --..++-+|..     ++-++++
T Consensus       887 ~~fP~LiQGpTSSGKTSMI~yla~~tghkfVRINNHEHTdlqeYiGTyvTdd~G~lsFkEGvLVeAlR-----~GyWIVL  961 (4600)
T COG5271         887 SNFPLLIQGPTSSGKTSMILYLARETGHKFVRINNHEHTDLQEYIGTYVTDDDGSLSFKEGVLVEALR-----RGYWIVL  961 (4600)
T ss_pred             cCCcEEEecCCCCCcchHHHHHHHHhCccEEEecCcccchHHHHhhceeecCCCceeeehhHHHHHHh-----cCcEEEe
Confidence            346899999999999999999999999999999876422  11111    1111   11223333322     3569999


Q ss_pred             ccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC--------CCCCcEEEEEeecCcc------cccHHhhccCCcceE
Q 007255          123 DEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK--------TSVPHVVVVASTNRVD------AIDPALRRSGRFDAE  188 (611)
Q Consensus       123 Deid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~--------~~~~~v~ii~ttn~~~------~l~~~l~~~~Rf~~~  188 (611)
                      ||++.. |         ..++..|-+++|.++.-.        .+.+++.+++|.|+|.      .++.+++.  ||. .
T Consensus       962 DELNLA-p---------TDVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~YgGRK~LSrAFRN--RFl-E 1028 (4600)
T COG5271         962 DELNLA-P---------TDVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYGGRKGLSRAFRN--RFL-E 1028 (4600)
T ss_pred             eccccC-c---------HHHHHHHHHhhccccceecCCcceeeccCCCeeEEeecCCCccccchHHHHHHHHh--hhH-h
Confidence            999643 3         267888889998754332        3567899999999875      67889987  995 8


Q ss_pred             EEccCCCHHHHHHHHHHhhcC
Q 007255          189 VEVTVPTAEERFEILKLYTKK  209 (611)
Q Consensus       189 i~~~~p~~~~r~~Il~~~~~~  209 (611)
                      ++|..-..++...|+...++-
T Consensus      1029 ~hFddipedEle~ILh~rc~i 1049 (4600)
T COG5271        1029 MHFDDIPEDELEEILHGRCEI 1049 (4600)
T ss_pred             hhcccCcHHHHHHHHhccCcc
Confidence            899999999999999877653

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.41  E-value=1.1e-11  Score=121.05  Aligned_cols=182  Identities=15%  Similarity=0.152  Sum_probs=110.4

Q ss_pred             cccccC--CcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEccccccc
Q 007255           17 AEEAIG--GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVISPHSVHK   91 (611)
Q Consensus        17 ~~~~i~--G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~---~~~~~v~~~~~~~   91 (611)
                      +|++.+  ++..++..+.++...             ....+++|+||+|||||++++++++++.   ....+++......
T Consensus        20 ~fd~f~~~~n~~a~~~l~~~~~~-------------~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~   86 (235)
T PRK08084         20 TFASFYPGDNDSLLAALQNALRQ-------------EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAW   86 (235)
T ss_pred             CccccccCccHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhh
Confidence            345554  466667766665422             1235899999999999999999998764   3344544433211


Q ss_pred             ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC
Q 007255           92 AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (611)
Q Consensus        92 ~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~  171 (611)
                              ...++.+....      -.+|+|||++.+....        .+...++.+++.......   ..++++++++
T Consensus        87 --------~~~~~~~~~~~------~dlliiDdi~~~~~~~--------~~~~~lf~l~n~~~e~g~---~~li~ts~~~  141 (235)
T PRK08084         87 --------FVPEVLEGMEQ------LSLVCIDNIECIAGDE--------LWEMAIFDLYNRILESGR---TRLLITGDRP  141 (235)
T ss_pred             --------hhHHHHHHhhh------CCEEEEeChhhhcCCH--------HHHHHHHHHHHHHHHcCC---CeEEEeCCCC
Confidence                    11122222111      2489999999875432        334444444443221110   1355555566


Q ss_pred             ccc---ccHHhhccCCcc--eEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCccccHHHHHHH
Q 007255          172 VDA---IDPALRRSGRFD--AEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCRE  239 (611)
Q Consensus       172 ~~~---l~~~l~~~~Rf~--~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~~~dl~~l~~~  239 (611)
                      +..   +.|++++  |+.  ..+.+.+|+.+++.++++......++.- +.-++.++..+.|- .+.+..+++.
T Consensus       142 p~~l~~~~~~L~S--Rl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~~l~~~v~~~L~~~~~~d-~r~l~~~l~~  212 (235)
T PRK08084        142 PRQLNLGLPDLAS--RLDWGQIYKLQPLSDEEKLQALQLRARLRGFELPEDVGRFLLKRLDRE-MRTLFMTLDQ  212 (235)
T ss_pred             hHHcCcccHHHHH--HHhCCceeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhhcCC-HHHHHHHHHH
Confidence            655   5799999  774  6899999999999999988665544432 23477777776643 4445555554

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.41  E-value=2.9e-12  Score=127.33  Aligned_cols=142  Identities=21%  Similarity=0.288  Sum_probs=97.1

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccc------cccccccchHHHHHHHHHH---------------HHhh
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS------VHKAHVGESEKALREAFSQ---------------ASSH  111 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~------~~~~~~~~~~~~l~~~f~~---------------~~~~  111 (611)
                      ..++||+||||||||++|+++|+.+|.+++.++++.      +...+.+........-|..               ..-.
T Consensus        21 g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~l~  100 (262)
T TIGR02640        21 GYPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDIVRQNWVDNRLT  100 (262)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcccceeecCchHH
Confidence            479999999999999999999999999999987754      2222211111111110100               0000


Q ss_pred             hhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC----------CCCCcEEEEEeecCcc-----ccc
Q 007255          112 ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK----------TSVPHVVVVASTNRVD-----AID  176 (611)
Q Consensus       112 ~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~----------~~~~~v~ii~ttn~~~-----~l~  176 (611)
                      ....++.+|+|||+|.+.+          .++..|+..++......          ...+++.+|+|+|+..     .++
T Consensus       101 ~A~~~g~~lllDEi~r~~~----------~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~~~~g~~~l~  170 (262)
T TIGR02640       101 LAVREGFTLVYDEFTRSKP----------ETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPVEYAGVHETQ  170 (262)
T ss_pred             HHHHcCCEEEEcchhhCCH----------HHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCccccceeccc
Confidence            0112467999999998754          67888888887632100          1224678999999853     668


Q ss_pred             HHhhccCCcceEEEccCCCHHHHHHHHHHhh
Q 007255          177 PALRRSGRFDAEVEVTVPTAEERFEILKLYT  207 (611)
Q Consensus       177 ~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~  207 (611)
                      +++.+  || ..+.++.|+.++..+|++...
T Consensus       171 ~aL~~--R~-~~i~i~~P~~~~e~~Il~~~~  198 (262)
T TIGR02640       171 DALLD--RL-ITIFMDYPDIDTETAILRAKT  198 (262)
T ss_pred             HHHHh--hc-EEEECCCCCHHHHHHHHHHhh
Confidence            99998  98 489999999999999998764

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.41  E-value=8.9e-12  Score=137.02  Aligned_cols=188  Identities=19%  Similarity=0.266  Sum_probs=134.8

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc-------------
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------------   80 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-------------   80 (611)
                      +...|++|+|++.+++.|...+..            -..+..+||+||+|+|||++++.+|+.+.+.             
T Consensus        12 RP~~f~~viGq~~~~~~L~~~i~~------------~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~   79 (614)
T PRK14971         12 RPSTFESVVGQEALTTTLKNAIAT------------NKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECE   79 (614)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc------------CCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcch
Confidence            346789999999999999998753            1245679999999999999999999988642             


Q ss_pred             ------------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHH
Q 007255           81 ------------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFT  148 (611)
Q Consensus        81 ------------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~  148 (611)
                                  ++.+++..      ......++.+.+.+...+..+..-|++|||+|.|..          ..++.|+.
T Consensus        80 sC~~~~~~~~~n~~~ld~~~------~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~----------~a~naLLK  143 (614)
T PRK14971         80 SCVAFNEQRSYNIHELDAAS------NNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQ----------AAFNAFLK  143 (614)
T ss_pred             HHHHHhcCCCCceEEecccc------cCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCH----------HHHHHHHH
Confidence                        11222110      112345666666665555555667999999998843          45788999


Q ss_pred             HHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccC
Q 007255          149 LMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNG  227 (611)
Q Consensus       149 ~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g  227 (611)
                      .++..      +..+++|.+|+....+.+.+++  |+. .+.|.+++.++....++..+...++..+ ..+..++..++|
T Consensus       144 ~LEep------p~~tifIL~tt~~~kIl~tI~S--Rc~-iv~f~~ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s~g  214 (614)
T PRK14971        144 TLEEP------PSYAIFILATTEKHKILPTILS--RCQ-IFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADG  214 (614)
T ss_pred             HHhCC------CCCeEEEEEeCCchhchHHHHh--hhh-eeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Confidence            99873      2346677777777899999998  874 7999999999999999988776665533 247778877765


Q ss_pred             CccccHHHHHHH
Q 007255          228 YVGADLEALCRE  239 (611)
Q Consensus       228 ~~~~dl~~l~~~  239 (611)
                      - .+++.++++.
T Consensus       215 d-lr~al~~Lek  225 (614)
T PRK14971        215 G-MRDALSIFDQ  225 (614)
T ss_pred             C-HHHHHHHHHH
Confidence            3 3344444433

>PRK06893 DNA replication initiation factor; Validated

Probab=99.41  E-value=5.7e-12  Score=122.69  Aligned_cols=160  Identities=13%  Similarity=0.152  Sum_probs=100.5

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCC
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCP  130 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~  130 (611)
                      ..++|+||||||||++++++|+++   +....+++.....        .....+++..      .+..+|+|||++.+..
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~--------~~~~~~~~~~------~~~dlLilDDi~~~~~  105 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQ--------YFSPAVLENL------EQQDLVCLDDLQAVIG  105 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhh--------hhhHHHHhhc------ccCCEEEEeChhhhcC
Confidence            468999999999999999999886   3344444443211        0111222222      1356999999998754


Q ss_pred             CCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccccc---HHhhccCCcceEEEccCCCHHHHHHHHHHhh
Q 007255          131 RRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAID---PALRRSGRFDAEVEVTVPTAEERFEILKLYT  207 (611)
Q Consensus       131 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~---~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~  207 (611)
                      ..        .+...++.+++......   ..+++++++..|..++   ++++++.++...+.+++|+.+++.+|++..+
T Consensus       106 ~~--------~~~~~l~~l~n~~~~~~---~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a  174 (229)
T PRK06893        106 NE--------EWELAIFDLFNRIKEQG---KTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNA  174 (229)
T ss_pred             Ch--------HHHHHHHHHHHHHHHcC---CcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHH
Confidence            32        23345566665432211   1245556666666554   8999855556788999999999999999877


Q ss_pred             cCCCCCCc-ccHHHHHHhccCCccccHHHHHHH
Q 007255          208 KKVPLDAN-VDLEAIATSCNGYVGADLEALCRE  239 (611)
Q Consensus       208 ~~~~~~~~-~~~~~la~~~~g~~~~dl~~l~~~  239 (611)
                      ....+..+ ..++.++..+.|- .+.+..++..
T Consensus       175 ~~~~l~l~~~v~~~L~~~~~~d-~r~l~~~l~~  206 (229)
T PRK06893        175 YQRGIELSDEVANFLLKRLDRD-MHTLFDALDL  206 (229)
T ss_pred             HHcCCCCCHHHHHHHHHhccCC-HHHHHHHHHH
Confidence            65554433 3477778776643 3444444443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.41  E-value=1.1e-11  Score=127.81  Aligned_cols=175  Identities=22%  Similarity=0.289  Sum_probs=118.1

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEcccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~-----~~~~v~~~~~~   90 (611)
                      +.+++++|++++++.|..++..             ....+++|+||||||||++++++++++..     .++.+++++..
T Consensus        14 ~~~~~~~g~~~~~~~l~~~i~~-------------~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~   80 (319)
T PRK00440         14 RTLDEIVGQEEIVERLKSYVKE-------------KNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDER   80 (319)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEecccccc
Confidence            6679999999999999988743             12246999999999999999999998743     34444433211


Q ss_pred             cccccchHHHHHHHHHHHH-hhhhc-CCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEe
Q 007255           91 KAHVGESEKALREAFSQAS-SHALS-GKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~-~~~~~-~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t  168 (611)
                            ....+...+.... ..+.. ..+.+++|||+|.+..          ..+..|+..++....      ...+|.+
T Consensus        81 ------~~~~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l~~----------~~~~~L~~~le~~~~------~~~lIl~  138 (319)
T PRK00440         81 ------GIDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLTS----------DAQQALRRTMEMYSQ------NTRFILS  138 (319)
T ss_pred             ------chHHHHHHHHHHHhcCCCCCCCceEEEEeCcccCCH----------HHHHHHHHHHhcCCC------CCeEEEE
Confidence                  1111222222221 11111 2356999999998843          335667777765332      2456667


Q ss_pred             ecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCC
Q 007255          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGY  228 (611)
Q Consensus       169 tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~  228 (611)
                      +|.+..+.+++.+  |+. .+.|++++.++...+++.++...+.. ....+..++..+.|.
T Consensus       139 ~~~~~~l~~~l~s--r~~-~~~~~~l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~gd  196 (319)
T PRK00440        139 CNYSSKIIDPIQS--RCA-VFRFSPLKKEAVAERLRYIAENEGIEITDDALEAIYYVSEGD  196 (319)
T ss_pred             eCCccccchhHHH--Hhh-eeeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Confidence            7777788888888  775 68999999999999999888765543 233577888776653

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.39  E-value=1.4e-12  Score=130.14  Aligned_cols=141  Identities=17%  Similarity=0.215  Sum_probs=100.7

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccc--cccchHHHH----------HHHHHHHHhhhhcCCCeE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA--HVGESEKAL----------REAFSQASSHALSGKPSV  119 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~--~~~~~~~~l----------~~~f~~~~~~~~~~~~~i  119 (611)
                      ..++++|.||||||||++++.+|+.++.+++.++++.....  ..|...-.+          ...+..+     ...+++
T Consensus        63 ~~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A-----~~~g~i  137 (327)
T TIGR01650        63 YDRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWA-----LQHNVA  137 (327)
T ss_pred             cCCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhH-----HhCCeE
Confidence            45799999999999999999999999999999987643322  223211000          0111112     134789


Q ss_pred             EEEccccccCCCCCCCchhhHHHHHHHHHHHhcC--------CCCCCCCCcEEEEEeecCcc------------cccHHh
Q 007255          120 VFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN--------KPSKTSVPHVVVVASTNRVD------------AIDPAL  179 (611)
Q Consensus       120 l~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~--------~~~~~~~~~v~ii~ttn~~~------------~l~~~l  179 (611)
                      |++||+|...+          +++..|..+++..        .......+.+.+|+|+|+.+            .+++++
T Consensus       138 lllDEin~a~p----------~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~~l~~A~  207 (327)
T TIGR01650       138 LCFDEYDAGRP----------DVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGDTTGLYHGTQQINQAQ  207 (327)
T ss_pred             EEechhhccCH----------HHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCCCCcceeeeecCCHHH
Confidence            99999998755          5567777777631        11122445799999999853            568999


Q ss_pred             hccCCcceEEEccCCCHHHHHHHHHHhhcC
Q 007255          180 RRSGRFDAEVEVTVPTAEERFEILKLYTKK  209 (611)
Q Consensus       180 ~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~  209 (611)
                      +.  ||...+.++.|+.++-.+|+......
T Consensus       208 lD--RF~i~~~~~Yp~~e~E~~Il~~~~~~  235 (327)
T TIGR01650       208 MD--RWSIVTTLNYLEHDNEAAIVLAKAKG  235 (327)
T ss_pred             Hh--heeeEeeCCCCCHHHHHHHHHhhccC
Confidence            98  99878899999999999999876543

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.39  E-value=1.8e-11  Score=125.70  Aligned_cols=186  Identities=17%  Similarity=0.188  Sum_probs=124.2

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc-------EEEE-cc
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------LTVI-SP   86 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-------~~~v-~~   86 (611)
                      ...+++++|++++++.|..++..            -+.+..+||+||+|+|||++++.+|+.+.+.       .... .+
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~------------grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~   86 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYRE------------GKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPD   86 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHc------------CCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCC
Confidence            36788999999999999998754            1345679999999999999999999998651       1000 00


Q ss_pred             ---c-----------ccc---cc--c------ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHH
Q 007255           87 ---H-----------SVH---KA--H------VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVR  141 (611)
Q Consensus        87 ---~-----------~~~---~~--~------~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~  141 (611)
                         .           ++.   ..  .      ..-....++.+.+........++..|++|||+|.|..          .
T Consensus        87 ~~c~~c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~----------~  156 (351)
T PRK09112         87 PASPVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNR----------N  156 (351)
T ss_pred             CCCHHHHHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCH----------H
Confidence               0           000   00  0      0111234444444333333345567999999998854          5


Q ss_pred             HHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHH
Q 007255          142 IASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAI  221 (611)
Q Consensus       142 ~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~l  221 (611)
                      .++.|+..+++..      .+.++|..|+.++.+.|.+++  |+ ..+.|++|+.++..+++.........+ +..+..+
T Consensus       157 aanaLLk~LEEpp------~~~~fiLit~~~~~llptIrS--Rc-~~i~l~pl~~~~~~~~L~~~~~~~~~~-~~~~~~i  226 (351)
T PRK09112        157 AANAILKTLEEPP------ARALFILISHSSGRLLPTIRS--RC-QPISLKPLDDDELKKALSHLGSSQGSD-GEITEAL  226 (351)
T ss_pred             HHHHHHHHHhcCC------CCceEEEEECChhhccHHHHh--hc-cEEEecCCCHHHHHHHHHHhhcccCCC-HHHHHHH
Confidence            5788999998632      245666667778889999998  88 489999999999999998743322211 2235666


Q ss_pred             HHhccCCcccc
Q 007255          222 ATSCNGYVGAD  232 (611)
Q Consensus       222 a~~~~g~~~~d  232 (611)
                      +..+.|.....
T Consensus       227 ~~~s~G~pr~A  237 (351)
T PRK09112        227 LQRSKGSVRKA  237 (351)
T ss_pred             HHHcCCCHHHH
Confidence            66666654443

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.39  E-value=2e-12  Score=132.63  Aligned_cols=153  Identities=19%  Similarity=0.190  Sum_probs=111.5

Q ss_pred             ccccccc-hhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEE-------------
Q 007255          288 TWEDIGG-LRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF-------------  353 (611)
Q Consensus       288 ~~~~i~g-~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~-------------  353 (611)
                      .|+.|.| ++.+.+.+...+..            .+.++.+||+||+|+||+++|+++|+.+.+.-.             
T Consensus         3 ~~~~i~~~q~~~~~~L~~~~~~------------~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~   70 (329)
T PRK08058          3 TWEQLTALQPVVVKMLQNSIAK------------NRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCK   70 (329)
T ss_pred             cHHHHHhhHHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHH
Confidence            5788888 89999999988763            356778999999999999999999998754310             


Q ss_pred             ---eecchhhcc-ccccc--hHHHHHHHHHHHH----hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcC
Q 007255          354 ---SLSGAELYS-MYVGE--SEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (611)
Q Consensus       354 ---~~~~~~~~~-~~~g~--~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~  423 (611)
                         .-+-+++.- ...|.  .-..++.+.+.+.    .....|++|||+|.+              +....+.||+.|+ 
T Consensus        71 ~~~~~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~--------------~~~a~NaLLK~LE-  135 (329)
T PRK08058         71 RIDSGNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKM--------------TASAANSLLKFLE-  135 (329)
T ss_pred             HHhcCCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhh--------------CHHHHHHHHHHhc-
Confidence               000011100 00111  1234555544433    123359999999877              3567899999999 


Q ss_pred             CCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHH
Q 007255          424 LEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILR  471 (611)
Q Consensus       424 ~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~  471 (611)
                       ++++.+++|++|+.++.+.+.+++  |+. .+.|++|+.++..+.++
T Consensus       136 -EPp~~~~~Il~t~~~~~ll~TIrS--Rc~-~i~~~~~~~~~~~~~L~  179 (329)
T PRK08058        136 -EPSGGTTAILLTENKHQILPTILS--RCQ-VVEFRPLPPESLIQRLQ  179 (329)
T ss_pred             -CCCCCceEEEEeCChHhCcHHHHh--hce-eeeCCCCCHHHHHHHHH
Confidence             688899999999999999999998  887 89999999998877776

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.39  E-value=2.9e-11  Score=118.33  Aligned_cols=126  Identities=24%  Similarity=0.359  Sum_probs=87.5

Q ss_pred             CcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCC------------CcccchhccCCCC
Q 007255          384 PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR------------PHAIDAALMRPGR  451 (611)
Q Consensus       384 p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~------------~~~ld~al~r~gR  451 (611)
                      |.||||||+|.|              .-+.++-|-+.|+.   .=--++|++||+            |+-++..|+.  |
T Consensus       292 pGVLFIDEvHmL--------------DIE~FsFlnrAlEs---e~aPIii~AtNRG~~kiRGTd~~sPhGIP~DlLD--R  352 (450)
T COG1224         292 PGVLFIDEVHML--------------DIECFSFLNRALES---ELAPIIILATNRGMTKIRGTDIESPHGIPLDLLD--R  352 (450)
T ss_pred             cceEEEechhhh--------------hHHHHHHHHHHhhc---ccCcEEEEEcCCceeeecccCCcCCCCCCHhhhh--h
Confidence            556777777766              12344444445542   112367778884            6678888887  7


Q ss_pred             ccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          452 FDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       452 f~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      +- +|...+++.++.+.|+++..+...+. ++..++.|+....--|-+..-+++.-|...|-++.  ...+..+|+..+.
T Consensus       353 ll-II~t~py~~~EireIi~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg--~~~V~~~dVe~a~  429 (450)
T COG1224         353 LL-IISTRPYSREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRG--SKRVEVEDVERAK  429 (450)
T ss_pred             ee-EEecCCCCHHHHHHHHHHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhC--CCeeehhHHHHHH
Confidence            75 78888999999999999888776665 44557888888776677777787777777777664  4457777777765


Q ss_pred             h
Q 007255          531 D  531 (611)
Q Consensus       531 ~  531 (611)
                      .
T Consensus       430 ~  430 (450)
T COG1224         430 E  430 (450)
T ss_pred             H
Confidence            4

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=99.38  E-value=3.3e-11  Score=124.22  Aligned_cols=213  Identities=25%  Similarity=0.373  Sum_probs=136.1

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc-----EEEEccccccccc-
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-----LTVISPHSVHKAH-   93 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-----~~~v~~~~~~~~~-   93 (611)
                      .+.+.++.++++...+...+.         -..|.+++++||||||||.+++.+++++...     ++++||......+ 
T Consensus        18 ~l~~Re~ei~~l~~~l~~~~~---------~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~   88 (366)
T COG1474          18 ELPHREEEINQLASFLAPALR---------GERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQ   88 (366)
T ss_pred             cccccHHHHHHHHHHHHHHhc---------CCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHH
Confidence            489999999999998755333         1244569999999999999999999998543     7889987543221 


Q ss_pred             --------------ccchH-HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCC
Q 007255           94 --------------VGESE-KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKT  158 (611)
Q Consensus        94 --------------~~~~~-~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  158 (611)
                                    .|... +.+..+++....   .....|+++||+|.|.....       +++..|+......     
T Consensus        89 i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~---~~~~~IvvLDEid~L~~~~~-------~~LY~L~r~~~~~-----  153 (366)
T COG1474          89 VLSKILNKLGKVPLTGDSSLEILKRLYDNLSK---KGKTVIVILDEVDALVDKDG-------EVLYSLLRAPGEN-----  153 (366)
T ss_pred             HHHHHHHHcCCCCCCCCchHHHHHHHHHHHHh---cCCeEEEEEcchhhhccccc-------hHHHHHHhhcccc-----
Confidence                          11111 122222222221   24567999999999987532       4455555554443     


Q ss_pred             CCCcEEEEEeecCc---ccccHHhhccCCcc-eEEEccCCCHHHHHHHHHHhhcCCCCCC--ccc-HHHHH---HhccCC
Q 007255          159 SVPHVVVVASTNRV---DAIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKVPLDA--NVD-LEAIA---TSCNGY  228 (611)
Q Consensus       159 ~~~~v~ii~ttn~~---~~l~~~l~~~~Rf~-~~i~~~~p~~~~r~~Il~~~~~~~~~~~--~~~-~~~la---~~~~g~  228 (611)
                       ..++.+|+.+|..   +.++|.+.+  ++. .+|.||+++.+|...|+...........  +.+ ++.++   ....| 
T Consensus       154 -~~~v~vi~i~n~~~~~~~ld~rv~s--~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~G-  229 (366)
T COG1474         154 -KVKVSIIAVSNDDKFLDYLDPRVKS--SLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESG-  229 (366)
T ss_pred             -ceeEEEEEEeccHHHHHHhhhhhhh--ccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCc-
Confidence             2368899999885   478999998  543 4689999999999999998876532221  112 33333   33333 


Q ss_pred             ccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHH
Q 007255          229 VGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHA  268 (611)
Q Consensus       229 ~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a  268 (611)
                      ..+-...+++.|...|-++..        ..++.++...+
T Consensus       230 DAR~aidilr~A~eiAe~~~~--------~~v~~~~v~~a  261 (366)
T COG1474         230 DARKAIDILRRAGEIAEREGS--------RKVSEDHVREA  261 (366)
T ss_pred             cHHHHHHHHHHHHHHHHhhCC--------CCcCHHHHHHH
Confidence            333344566777666654433        24555555554

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.38  E-value=1.4e-11  Score=120.16  Aligned_cols=181  Identities=21%  Similarity=0.298  Sum_probs=114.9

Q ss_pred             CCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccchH
Q 007255           22 GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESE   98 (611)
Q Consensus        22 ~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~~   98 (611)
                      .+.+.+++.+.+++..             ..+.+++|+||+|||||++++++++.+   +.+++.+++..+....     
T Consensus        20 ~~~~~~~~~l~~~~~~-------------~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~~~-----   81 (226)
T TIGR03420        20 GGNAELLAALRQLAAG-------------KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQAD-----   81 (226)
T ss_pred             CCcHHHHHHHHHHHhc-------------CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHHhH-----
Confidence            3577788888776521             245799999999999999999999876   4677888877664321     


Q ss_pred             HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccccc--
Q 007255           99 KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAID--  176 (611)
Q Consensus        99 ~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~--  176 (611)
                         ..++...      .+..+|+|||+|.+....        ..+..+..+++......    ..++++++..+..++  
T Consensus        82 ---~~~~~~~------~~~~lLvIDdi~~l~~~~--------~~~~~L~~~l~~~~~~~----~~iIits~~~~~~~~~~  140 (226)
T TIGR03420        82 ---PEVLEGL------EQADLVCLDDVEAIAGQP--------EWQEALFHLYNRVREAG----GRLLIAGRAAPAQLPLR  140 (226)
T ss_pred             ---HHHHhhc------ccCCEEEEeChhhhcCCh--------HHHHHHHHHHHHHHHcC----CeEEEECCCChHHCCcc
Confidence               1222221      124599999999875421        22445555554321111    123444443443332  


Q ss_pred             -HHhhccCCc--ceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCccccHHHHHHHHHHHH
Q 007255          177 -PALRRSGRF--DAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREATMSA  244 (611)
Q Consensus       177 -~~l~~~~Rf--~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~~dl~~l~~~a~~~a  244 (611)
                       +.+.+  |+  ...+.+++|+.+++..+++.+........+ ..+..++.. -+.+.+++.++++.+...+
T Consensus       141 ~~~L~~--r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~l~~L~~~-~~gn~r~L~~~l~~~~~~~  209 (226)
T TIGR03420       141 LPDLRT--RLAWGLVFQLPPLSDEEKIAALQSRAARRGLQLPDEVADYLLRH-GSRDMGSLMALLDALDRAS  209 (226)
T ss_pred             cHHHHH--HHhcCeeEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHh-ccCCHHHHHHHHHHHHHHH
Confidence             77777  55  468999999999999999987665443322 236777774 3345677777777655433

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.38  E-value=2.3e-11  Score=125.61  Aligned_cols=184  Identities=20%  Similarity=0.212  Sum_probs=125.9

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcE------------
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL------------   81 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~------------   81 (611)
                      ..+.+++|+|++++++.|.+.+..            -+.+..+||+||+|+||+++|.++|+.+.+.-            
T Consensus        14 ~P~~~~~iiGq~~~~~~L~~~~~~------------~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~   81 (365)
T PRK07471         14 HPRETTALFGHAAAEAALLDAYRS------------GRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPT   81 (365)
T ss_pred             CCCchhhccChHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccc
Confidence            346789999999999999988754            13456799999999999999999999884321            


Q ss_pred             ----------------------EEEcccccccc---cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCc
Q 007255           82 ----------------------TVISPHSVHKA---HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR  136 (611)
Q Consensus        82 ----------------------~~v~~~~~~~~---~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~  136 (611)
                                            +.+....-...   ...-....++++.+........+.+.|++|||+|.+..      
T Consensus        82 ~l~~~~~c~~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~------  155 (365)
T PRK07471         82 SLAIDPDHPVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNA------  155 (365)
T ss_pred             cccCCCCChHHHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCH------
Confidence                                  11110000000   00012344555555554444456788999999998843      


Q ss_pred             hhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcc
Q 007255          137 EQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV  216 (611)
Q Consensus       137 ~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~  216 (611)
                          ..++.|+..+++.      +.+.++|.+|+.++.+.+.+++  |+. .+.|++|+.++..+++......   ..+.
T Consensus       156 ----~aanaLLK~LEep------p~~~~~IL~t~~~~~llpti~S--Rc~-~i~l~~l~~~~i~~~L~~~~~~---~~~~  219 (365)
T PRK07471        156 ----NAANALLKVLEEP------PARSLFLLVSHAPARLLPTIRS--RCR-KLRLRPLAPEDVIDALAAAGPD---LPDD  219 (365)
T ss_pred             ----HHHHHHHHHHhcC------CCCeEEEEEECCchhchHHhhc--cce-EEECCCCCHHHHHHHHHHhccc---CCHH
Confidence                5678899999863      2346777788888889999988  874 8999999999999998875321   1121


Q ss_pred             cHHHHHHhccCCccc
Q 007255          217 DLEAIATSCNGYVGA  231 (611)
Q Consensus       217 ~~~~la~~~~g~~~~  231 (611)
                      .+..++..++|..+.
T Consensus       220 ~~~~l~~~s~Gsp~~  234 (365)
T PRK07471        220 PRAALAALAEGSVGR  234 (365)
T ss_pred             HHHHHHHHcCCCHHH
Confidence            235566666665444

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.38  E-value=1.9e-11  Score=131.58  Aligned_cols=168  Identities=22%  Similarity=0.351  Sum_probs=109.0

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccccc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL  128 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l  128 (611)
                      ++++|+|++|+|||+|++++++++     +..++++++.++...+...........|....     .+..+|+|||++.+
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~~~~~~f~~~y-----~~~DLLlIDDIq~l  389 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRDGKGDSFRRRY-----REMDILLVDDIQFL  389 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHhccHHHHHHHh-----hcCCEEEEehhccc
Confidence            569999999999999999999976     45778888877654433221111111222221     13569999999988


Q ss_pred             CCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc---cccHHhhccCCc--ceEEEccCCCHHHHHHHH
Q 007255          129 CPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRF--DAEVEVTVPTAEERFEIL  203 (611)
Q Consensus       129 ~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~---~l~~~l~~~~Rf--~~~i~~~~p~~~~r~~Il  203 (611)
                      ....        ..+..|+.+++......    .-+||++...+.   .++++|++  ||  ...+.+..|+.+.|..|+
T Consensus       390 ~gke--------~tqeeLF~l~N~l~e~g----k~IIITSd~~P~eL~~l~~rL~S--Rf~~GLvv~I~~PD~EtR~aIL  455 (617)
T PRK14086        390 EDKE--------STQEEFFHTFNTLHNAN----KQIVLSSDRPPKQLVTLEDRLRN--RFEWGLITDVQPPELETRIAIL  455 (617)
T ss_pred             cCCH--------HHHHHHHHHHHHHHhcC----CCEEEecCCChHhhhhccHHHHh--hhhcCceEEcCCCCHHHHHHHH
Confidence            6532        23445555555433221    124444333343   56899998  66  567899999999999999


Q ss_pred             HHhhcCCCCCCc-ccHHHHHHhccCCccccHHHHHHHHH
Q 007255          204 KLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       204 ~~~~~~~~~~~~-~~~~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                      +..+....+... .-+++|+....+ +.+.|+.++....
T Consensus       456 ~kka~~r~l~l~~eVi~yLa~r~~r-nvR~LegaL~rL~  493 (617)
T PRK14086        456 RKKAVQEQLNAPPEVLEFIASRISR-NIRELEGALIRVT  493 (617)
T ss_pred             HHHHHhcCCCCCHHHHHHHHHhccC-CHHHHHHHHHHHH
Confidence            998877665533 347777776653 3556666655543

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.37  E-value=3.6e-11  Score=111.75  Aligned_cols=192  Identities=21%  Similarity=0.265  Sum_probs=139.3

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchh
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAE  359 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~  359 (611)
                      ..+.+.+.++.|.+.+++.|.+.-...+         ...|.+++||+|..|||||++++|+-++.   +..+++++..+
T Consensus        53 ~~~~i~L~~l~Gvd~qk~~L~~NT~~F~---------~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~d  123 (287)
T COG2607          53 DPDPIDLADLVGVDRQKEALVRNTEQFA---------EGLPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKED  123 (287)
T ss_pred             CCCCcCHHHHhCchHHHHHHHHHHHHHH---------cCCcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHH
Confidence            3455789999999999999877554322         23567899999999999999999999887   56788888888


Q ss_pred             hccccccchHHHHHHHHHHHHhcC-CcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC--CCCCCeEEEEec
Q 007255          360 LYSMYVGESEALLRNTFQRARLAA-PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL--EQAKGILVLAAT  436 (611)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a~~~~-p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~--~~~~~~~vI~~t  436 (611)
                      +..         +..+++..+..+ .-|||+|+.-             .+..+...+.|-..|||-  ..+.+|+|-+|+
T Consensus       124 l~~---------Lp~l~~~Lr~~~~kFIlFcDDLS-------------Fe~gd~~yK~LKs~LeG~ve~rP~NVl~YATS  181 (287)
T COG2607         124 LAT---------LPDLVELLRARPEKFILFCDDLS-------------FEEGDDAYKALKSALEGGVEGRPANVLFYATS  181 (287)
T ss_pred             Hhh---------HHHHHHHHhcCCceEEEEecCCC-------------CCCCchHHHHHHHHhcCCcccCCCeEEEEEec
Confidence            755         666777776543 3499999872             223344567777777764  356789999999


Q ss_pred             CCCcccchh--------------------ccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCc-ccHH----HHHHh
Q 007255          437 NRPHAIDAA--------------------LMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDD-VDLR----SIAEE  491 (611)
Q Consensus       437 n~~~~ld~a--------------------l~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~-~~~~----~la~~  491 (611)
                      |+.+.++..                    +.=+.||...+-|++++.++..+|++.+.+++.+.-+ ..+.    +.|..
T Consensus       182 NRRHLl~e~~~dn~~~~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~~~l~~~~e~l~~eAl~WAt~  261 (287)
T COG2607         182 NRRHLLPEDMKDNEGSTGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKHFGLDISDEELHAEALQWATT  261 (287)
T ss_pred             CCcccccHhhhhCCCcccccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence            987654421                    1112399999999999999999999999998887643 2232    23334


Q ss_pred             CCCCCHHHHHHHHH
Q 007255          492 TELFTGAELEGLCR  505 (611)
Q Consensus       492 ~~g~s~~~i~~~~~  505 (611)
                      ..|-||+-..+.++
T Consensus       262 rg~RSGR~A~QF~~  275 (287)
T COG2607         262 RGGRSGRVAWQFIR  275 (287)
T ss_pred             cCCCccHhHHHHHH
Confidence            44667776666555

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.37  E-value=6.3e-12  Score=133.41  Aligned_cols=171  Identities=24%  Similarity=0.366  Sum_probs=109.8

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccccccccchHH-HHHHHHHHHHhhhhcCCCeEEEEcccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEK-ALREAFSQASSHALSGKPSVVFIDEID  126 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~~~~~~~~~~-~l~~~f~~~~~~~~~~~~~il~IDeid  126 (611)
                      .++++|+||+|||||++++++++++     +..++++++.++.......... .... |....     ....+|+|||+|
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~-~~~~~-----~~~dlLiiDDi~  209 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALRNNKMEE-FKEKY-----RSVDLLLIDDIQ  209 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHHcCCHHH-HHHHH-----HhCCEEEEehhh
Confidence            4689999999999999999999887     5667888877654332211110 1111 11111     125699999999


Q ss_pred             ccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc---cccHHhhccCCcc--eEEEccCCCHHHHHH
Q 007255          127 ALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRFD--AEVEVTVPTAEERFE  201 (611)
Q Consensus       127 ~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~---~l~~~l~~~~Rf~--~~i~~~~p~~~~r~~  201 (611)
                      .+....        ..+..++..++......    ..++|++...|.   .+++++.+  ||.  ..+.+++|+.++|..
T Consensus       210 ~l~~~~--------~~~~~l~~~~n~~~~~~----~~iiits~~~p~~l~~l~~~l~S--Rl~~g~~v~i~~pd~~~r~~  275 (405)
T TIGR00362       210 FLAGKE--------RTQEEFFHTFNALHENG----KQIVLTSDRPPKELPGLEERLRS--RFEWGLVVDIEPPDLETRLA  275 (405)
T ss_pred             hhcCCH--------HHHHHHHHHHHHHHHCC----CCEEEecCCCHHHHhhhhhhhhh--hccCCeEEEeCCCCHHHHHH
Confidence            886532        22344555554322111    234555555554   45688988  775  579999999999999


Q ss_pred             HHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHHHH
Q 007255          202 ILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSA  244 (611)
Q Consensus       202 Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a  244 (611)
                      |++..+...+.. .+..++.++....+ +.++++.++......+
T Consensus       276 il~~~~~~~~~~l~~e~l~~ia~~~~~-~~r~l~~~l~~l~~~a  318 (405)
T TIGR00362       276 ILQKKAEEEGLELPDEVLEFIAKNIRS-NVRELEGALNRLLAYA  318 (405)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHHHHH
Confidence            999998776554 23347788877654 4566777666654443

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.37  E-value=1.9e-11  Score=124.24  Aligned_cols=166  Identities=23%  Similarity=0.318  Sum_probs=110.3

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC-------cEEEEcccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-------HLTVISPHS   88 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~-------~~~~v~~~~   88 (611)
                      -.|++|+|+++.|..|...+..|             ...++||.||+|||||++++.+++.+..       +|. ..+..
T Consensus        14 ~pf~~ivGq~~~k~al~~~~~~p-------------~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~-~~p~~   79 (350)
T CHL00081         14 FPFTAIVGQEEMKLALILNVIDP-------------KIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFN-SHPSD   79 (350)
T ss_pred             CCHHHHhChHHHHHHHHHhccCC-------------CCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCC-CCCCC
Confidence            47899999999999998776553             2368999999999999999999877631       121 00000


Q ss_pred             -------cc-------------------cccccchHHH------HHHHHHHHHh-----hhhcCCCeEEEEccccccCCC
Q 007255           89 -------VH-------------------KAHVGESEKA------LREAFSQASS-----HALSGKPSVVFIDEIDALCPR  131 (611)
Q Consensus        89 -------~~-------------------~~~~~~~~~~------l~~~f~~~~~-----~~~~~~~~il~IDeid~l~~~  131 (611)
                             ..                   .-..+.++..      +...|.....     .......++||+||++.+.+ 
T Consensus        80 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL~~-  158 (350)
T CHL00081         80 PELMSDEVREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDD-  158 (350)
T ss_pred             hhhhchhhhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhCCH-
Confidence                   00                   0001112221      1111221110     01123467999999998865 


Q ss_pred             CCCCchhhHHHHHHHHHHHhcCCC-------CCCCCCcEEEEEeecCcc-cccHHhhccCCcceEEEccCCC-HHHHHHH
Q 007255          132 RDHRREQDVRIASQLFTLMDSNKP-------SKTSVPHVVVVASTNRVD-AIDPALRRSGRFDAEVEVTVPT-AEERFEI  202 (611)
Q Consensus       132 ~~~~~~~~~~~~~~ll~~l~~~~~-------~~~~~~~v~ii~ttn~~~-~l~~~l~~~~Rf~~~i~~~~p~-~~~r~~I  202 (611)
                               ..+..|+..|+....       +...+.++++|+|.|+.+ .+++++..  ||...+.+..|+ .+.+.+|
T Consensus       159 ---------~~Q~~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~Lld--Rf~l~i~l~~~~~~~~e~~i  227 (350)
T CHL00081        159 ---------HLVDILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGMHAEIRTVKDPELRVKI  227 (350)
T ss_pred             ---------HHHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHH--HhCceeecCCCCChHHHHHH
Confidence                     678888888875321       122345789999999865 79999998  999999999997 6999999


Q ss_pred             HHHhh
Q 007255          203 LKLYT  207 (611)
Q Consensus       203 l~~~~  207 (611)
                      ++...
T Consensus       228 l~~~~  232 (350)
T CHL00081        228 VEQRT  232 (350)
T ss_pred             HHhhh
Confidence            98753

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=99.37  E-value=4.4e-12  Score=116.85  Aligned_cols=188  Identities=19%  Similarity=0.194  Sum_probs=121.9

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-C----CcEEeecc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-E----ASFFSLSG  357 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-~----~~~~~~~~  357 (611)
                      .+.+..+.||+|.++....|.-+...           |-  ..+++|.||||||||+-+.++|.++ |    -.+.++++
T Consensus        20 KYrP~~l~dIVGNe~tv~rl~via~~-----------gn--mP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNA   86 (333)
T KOG0991|consen   20 KYRPSVLQDIVGNEDTVERLSVIAKE-----------GN--MPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNA   86 (333)
T ss_pred             hhCchHHHHhhCCHHHHHHHHHHHHc-----------CC--CCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccC
Confidence            44566789999999999998877664           22  2379999999999999999999998 2    24667777


Q ss_pred             hhhccccccchHHHHHHHHHHHHhcCCc---EEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEE
Q 007255          358 AELYSMYVGESEALLRNTFQRARLAAPS---IIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLA  434 (611)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~a~~~~p~---il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~  434 (611)
                      ++-.+  ...-...++...+.--..+|+   |+++||+|++.              .-...+|-..|+-  .+....|..
T Consensus        87 SdeRG--IDvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT--------------~gAQQAlRRtMEi--yS~ttRFal  148 (333)
T KOG0991|consen   87 SDERG--IDVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMT--------------AGAQQALRRTMEI--YSNTTRFAL  148 (333)
T ss_pred             ccccc--cHHHHHHHHHHHHhhccCCCCceeEEEeeccchhh--------------hHHHHHHHHHHHH--Hcccchhhh
Confidence            76433  222333444443333334443   99999999773              2344556566653  344566778


Q ss_pred             ecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHH
Q 007255          435 ATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAG  508 (611)
Q Consensus       435 ~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~  508 (611)
                      ++|..+.|-.++-+  |+. ++.|...+..+...-+....+...+. .+..++.+..-++|    |+++.++...
T Consensus       149 aCN~s~KIiEPIQS--RCA-iLRysklsd~qiL~Rl~~v~k~Ekv~yt~dgLeaiifta~G----DMRQalNnLQ  216 (333)
T KOG0991|consen  149 ACNQSEKIIEPIQS--RCA-ILRYSKLSDQQILKRLLEVAKAEKVNYTDDGLEAIIFTAQG----DMRQALNNLQ  216 (333)
T ss_pred             hhcchhhhhhhHHh--hhH-hhhhcccCHHHHHHHHHHHHHHhCCCCCcchHHHhhhhccc----hHHHHHHHHH
Confidence            89999988766665  665 45555666666555555444333333 33446666665555    6777666543

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.37  E-value=2.8e-11  Score=123.90  Aligned_cols=177  Identities=11%  Similarity=0.218  Sum_probs=123.9

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc--------EEEEcccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--------LTVISPHS   88 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~--------~~~v~~~~   88 (611)
                      .|++|+|++.+++.|...+..            -+.+..+||+||+|+|||++|+.+|+.+.+.        +..+... 
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~~------------~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~-   68 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSIIK------------NRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPI-   68 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHHc------------CCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccc-
Confidence            368999999999999988743            2345678999999999999999999987442        2222221 


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEe
Q 007255           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (611)
Q Consensus        89 ~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t  168 (611)
                         .........++++.+.....+..++..|++||++|.+..          ...+.|+..+++      +++++++|.+
T Consensus        69 ---~~~~i~v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m~~----------~a~naLLK~LEe------pp~~t~~il~  129 (313)
T PRK05564         69 ---NKKSIGVDDIRNIIEEVNKKPYEGDKKVIIIYNSEKMTE----------QAQNAFLKTIEE------PPKGVFIILL  129 (313)
T ss_pred             ---cCCCCCHHHHHHHHHHHhcCcccCCceEEEEechhhcCH----------HHHHHHHHHhcC------CCCCeEEEEE
Confidence               001122344666666555555556677999999988743          567899999986      3335666777


Q ss_pred             ecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccc
Q 007255          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGA  231 (611)
Q Consensus       169 tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~  231 (611)
                      |+.++.+.|.+++  |+. .+.|++|+.++....++.....  .+ ...+..++..++|..++
T Consensus       130 ~~~~~~ll~TI~S--Rc~-~~~~~~~~~~~~~~~l~~~~~~--~~-~~~~~~l~~~~~g~~~~  186 (313)
T PRK05564        130 CENLEQILDTIKS--RCQ-IYKLNRLSKEEIEKFISYKYND--IK-EEEKKSAIAFSDGIPGK  186 (313)
T ss_pred             eCChHhCcHHHHh--hce-eeeCCCcCHHHHHHHHHHHhcC--CC-HHHHHHHHHHcCCCHHH
Confidence            7788999999999  874 8999999999998888765432  11 22345556655554443

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.37  E-value=6.3e-12  Score=127.55  Aligned_cols=161  Identities=20%  Similarity=0.317  Sum_probs=104.4

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-------CCc--EEee
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-------EAS--FFSL  355 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-------~~~--~~~~  355 (611)
                      ....|++|+|++++++.+.-....             ...+++||+||||||||++|+++|..+       +++  +..+
T Consensus         3 ~~~~f~~i~Gq~~~~~~l~~~~~~-------------~~~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~   69 (334)
T PRK13407          3 KPFPFSAIVGQEEMKQAMVLTAID-------------PGIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARP   69 (334)
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHhc-------------cCCCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcc
Confidence            346799999999999988765432             112579999999999999999999988       332  1111


Q ss_pred             cc---------hhhc---------------cccccch--HHHH---HHHHHH--HHhcCCcEEEEcccccccccCCCCCC
Q 007255          356 SG---------AELY---------------SMYVGES--EALL---RNTFQR--ARLAAPSIIFFDEADVVGAKRGGSSS  404 (611)
Q Consensus       356 ~~---------~~~~---------------~~~~g~~--~~~~---~~~~~~--a~~~~p~il~iDeid~l~~~~~~~~~  404 (611)
                      ..         ..+.               +...|..  +..+   ...|+.  ....+..+||+||++.+         
T Consensus        70 ~~~~~~~~~~~~~~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~~A~~GiL~lDEInrl---------  140 (334)
T PRK13407         70 EDCPEWAHVSSTTMIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYIDEVNLL---------  140 (334)
T ss_pred             cCCcccccccCCcccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceEEcCCCeEEecChHhC---------
Confidence            00         0000               0011110  0000   000110  00112349999999977         


Q ss_pred             CCcchhHHHHHHHHHHhcCCC-----------CCCCeEEEEecCCCc-ccchhccCCCCccceeecCCCCH-HHHHHHHH
Q 007255          405 TSITVGERLLSTLLTEMDGLE-----------QAKGILVLAATNRPH-AIDAALMRPGRFDLVLYVPPPDL-EARHEILR  471 (611)
Q Consensus       405 ~~~~~~~~~~~~ll~~l~~~~-----------~~~~~~vI~~tn~~~-~ld~al~r~gRf~~~i~~~~p~~-~~r~~il~  471 (611)
                           ....++.|+..|+.-.           ...++++|+++|..+ .++++++.  ||...+.++.|.. ++|.+|++
T Consensus       141 -----~~~~q~~Lle~mee~~v~v~r~G~~~~~p~rfiviAt~NP~e~~l~~aLld--RF~~~v~v~~~~~~~e~~~il~  213 (334)
T PRK13407        141 -----EDHIVDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEGELRPQLLD--RFGLSVEVRSPRDVETRVEVIR  213 (334)
T ss_pred             -----CHHHHHHHHHHHHcCCeEEEECCeEEecCCCEEEEecCCcccCCCCHHHHh--hcceEEEcCCCCcHHHHHHHHH
Confidence                 3567788888886321           235688888888655 58889998  9999999998877 89999998


Q ss_pred             HHh
Q 007255          472 VHT  474 (611)
Q Consensus       472 ~~~  474 (611)
                      ...
T Consensus       214 ~~~  216 (334)
T PRK13407        214 RRD  216 (334)
T ss_pred             Hhh
Confidence            643

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.36  E-value=3.2e-11  Score=127.95  Aligned_cols=211  Identities=19%  Similarity=0.309  Sum_probs=137.2

Q ss_pred             ccccccCCcHHHHHHHHHHHHh--hhhCchHHHhc-------------------CCCCCceEEEEcCCCCcHHHHHHHHH
Q 007255           16 KAEEAIGGNRAAVEALRELITF--PLLYSSQAQKL-------------------GLKWPRGLLLYGPPGTGKTSLVRAVV   74 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~--~~~~~~~~~~~-------------------g~~~~~~iLl~Gp~GtGKT~la~~la   74 (611)
                      +.|.++.|-+.+-..+..|+..  |..+.....++                   +.++.+-+||+||||-||||||+.+|
T Consensus       268 k~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGlGKTTLAHViA  347 (877)
T KOG1969|consen  268 KKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGLGKTTLAHVIA  347 (877)
T ss_pred             hHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCCChhHHHHHHH
Confidence            7789999999998888877753  22233211111                   22334779999999999999999999


Q ss_pred             HHhCCcEEEEcccccccccccchHHHHHHHHHHHHh----hhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHH
Q 007255           75 RECGAHLTVISPHSVHKAHVGESEKALREAFSQASS----HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (611)
Q Consensus        75 ~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~----~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l  150 (611)
                      ++.|..++.+|+++-..      ...++.....+.+    .....+|.+|+|||||--.          ..++..++.++
T Consensus       348 kqaGYsVvEINASDeRt------~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~----------~~~Vdvilslv  411 (877)
T KOG1969|consen  348 KQAGYSVVEINASDERT------APMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAP----------RAAVDVILSLV  411 (877)
T ss_pred             HhcCceEEEeccccccc------HHHHHHHHHHHHhhccccccCCCcceEEEecccCCc----------HHHHHHHHHHH
Confidence            99999999999987432      2233333333332    2123689999999998432          24566666666


Q ss_pred             hcC------CCC---------CCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc
Q 007255          151 DSN------KPS---------KTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN  215 (611)
Q Consensus       151 ~~~------~~~---------~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~  215 (611)
                      ...      ...         ....-.--|||.||..  ..|+|+.---|...++|.+|+..-..+=|+..|....+..+
T Consensus       412 ~a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdL--YaPaLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE~mr~d  489 (877)
T KOG1969|consen  412 KATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDL--YAPALRPLRPFAEIIAFVPPSQSRLVERLNEICHRENMRAD  489 (877)
T ss_pred             HhhcchhhcCcccchhhhhhhccccccCCEEEEecCc--cchhhhhcccceEEEEecCCChhHHHHHHHHHHhhhcCCCC
Confidence            521      110         0000123588999964  56788643357788999999999888888888776655433


Q ss_pred             ccHHHHHHhccCCccccHHHHHHHHHHHHhhh
Q 007255          216 VDLEAIATSCNGYVGADLEALCREATMSAVKR  247 (611)
Q Consensus       216 ~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r  247 (611)
                        ...+...|+ +...|++..++.....+.+.
T Consensus       490 --~~aL~~L~e-l~~~DIRsCINtLQfLa~~~  518 (877)
T KOG1969|consen  490 --SKALNALCE-LTQNDIRSCINTLQFLASNV  518 (877)
T ss_pred             --HHHHHHHHH-HhcchHHHHHHHHHHHHHhc
Confidence              334444443 33457877777666555543

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.35  E-value=4.7e-12  Score=128.51  Aligned_cols=167  Identities=25%  Similarity=0.325  Sum_probs=107.3

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC-------CcEEEE--cc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG-------AHLTVI--SP   86 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~-------~~~~~v--~~   86 (611)
                      .+|++|+|++++++.|.-....+             ...|+||.|+||||||+++++++..+.       .++-..  ..
T Consensus         5 ~~f~~i~Gq~~~~~~l~~~~~~~-------------~~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~~~   71 (334)
T PRK13407          5 FPFSAIVGQEEMKQAMVLTAIDP-------------GIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPED   71 (334)
T ss_pred             CCHHHhCCHHHHHHHHHHHHhcc-------------CCCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcccC
Confidence            46899999999999887644221             125899999999999999999999883       211110  00


Q ss_pred             c---------cc-------ccccccchHHHHHH--HHHHH---------HhhhhcCCCeEEEEccccccCCCCCCCchhh
Q 007255           87 H---------SV-------HKAHVGESEKALRE--AFSQA---------SSHALSGKPSVVFIDEIDALCPRRDHRREQD  139 (611)
Q Consensus        87 ~---------~~-------~~~~~~~~~~~l~~--~f~~~---------~~~~~~~~~~il~IDeid~l~~~~~~~~~~~  139 (611)
                      .         .+       .....+.++..+-.  .++..         .........++||+||++.+.+         
T Consensus        72 ~~~~~~~~~~~~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~~A~~GiL~lDEInrl~~---------  142 (334)
T PRK13407         72 CPEWAHVSSTTMIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYIDEVNLLED---------  142 (334)
T ss_pred             CcccccccCCcccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceEEcCCCeEEecChHhCCH---------
Confidence            0         00       00000111110100  00110         0000113356999999998754         


Q ss_pred             HHHHHHHHHHHhcCCC-------CCCCCCcEEEEEeecCcc-cccHHhhccCCcceEEEccCCCH-HHHHHHHHHhh
Q 007255          140 VRIASQLFTLMDSNKP-------SKTSVPHVVVVASTNRVD-AIDPALRRSGRFDAEVEVTVPTA-EERFEILKLYT  207 (611)
Q Consensus       140 ~~~~~~ll~~l~~~~~-------~~~~~~~v~ii~ttn~~~-~l~~~l~~~~Rf~~~i~~~~p~~-~~r~~Il~~~~  207 (611)
                       ..+..|++.|+....       ....+.++++++++|+.+ .+++++..  ||...+.+++|.. +++.+|++...
T Consensus       143 -~~q~~Lle~mee~~v~v~r~G~~~~~p~rfiviAt~NP~e~~l~~aLld--RF~~~v~v~~~~~~~e~~~il~~~~  216 (334)
T PRK13407        143 -HIVDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEGELRPQLLD--RFGLSVEVRSPRDVETRVEVIRRRD  216 (334)
T ss_pred             -HHHHHHHHHHHcCCeEEEECCeEEecCCCEEEEecCCcccCCCCHHHHh--hcceEEEcCCCCcHHHHHHHHHHhh
Confidence             678889999876431       112345689999999855 68999988  9998999998866 89999998743

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.35  E-value=1e-11  Score=117.45  Aligned_cols=144  Identities=19%  Similarity=0.219  Sum_probs=102.4

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCc------------------------EEeecchhhccccccchHHHHHHHHH
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEAS------------------------FFSLSGAELYSMYVGESEALLRNTFQ  377 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------------------------~~~~~~~~~~~~~~g~~~~~~~~~~~  377 (611)
                      ..++.+||+||+|+|||++|+++|..+.+.                        +..+....   .  .-....++.+.+
T Consensus        12 ~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~---~--~~~~~~i~~i~~   86 (188)
T TIGR00678        12 RLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEG---Q--SIKVDQVRELVE   86 (188)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEecccc---C--cCCHHHHHHHHH
Confidence            456789999999999999999999998543                        11111110   0  012345555565


Q ss_pred             HHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCcc
Q 007255          378 RARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFD  453 (611)
Q Consensus       378 ~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~  453 (611)
                      .+..    ....|++|||+|.+.              ....+.|++.|+.  +++...+|++|+.+..+.+++.+  |+.
T Consensus        87 ~~~~~~~~~~~kviiide~~~l~--------------~~~~~~Ll~~le~--~~~~~~~il~~~~~~~l~~~i~s--r~~  148 (188)
T TIGR00678        87 FLSRTPQESGRRVVIIEDAERMN--------------EAAANALLKTLEE--PPPNTLFILITPSPEKLLPTIRS--RCQ  148 (188)
T ss_pred             HHccCcccCCeEEEEEechhhhC--------------HHHHHHHHHHhcC--CCCCeEEEEEECChHhChHHHHh--hcE
Confidence            5543    234599999999872              3456889999984  56677788888888999999998  886


Q ss_pred             ceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCC
Q 007255          454 LVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETEL  494 (611)
Q Consensus       454 ~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g  494 (611)
                       .+.|++|+.++..++++..    .+ ++..+..++..+.|
T Consensus       149 -~~~~~~~~~~~~~~~l~~~----gi-~~~~~~~i~~~~~g  183 (188)
T TIGR00678       149 -VLPFPPLSEEALLQWLIRQ----GI-SEEAAELLLALAGG  183 (188)
T ss_pred             -EeeCCCCCHHHHHHHHHHc----CC-CHHHHHHHHHHcCC
Confidence             8999999999999888865    22 23446666666655

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>PRK09087 hypothetical protein; Validated

Probab=99.34  E-value=1.2e-11  Score=119.72  Aligned_cols=170  Identities=18%  Similarity=0.185  Sum_probs=112.8

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCC
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST  405 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~  405 (611)
                      .++|+||+|+|||+|+++++...+..++.  ..++...           ++....   ..+|+|||++.+..        
T Consensus        46 ~l~l~G~~GsGKThLl~~~~~~~~~~~i~--~~~~~~~-----------~~~~~~---~~~l~iDDi~~~~~--------  101 (226)
T PRK09087         46 VVVLAGPVGSGKTHLASIWREKSDALLIH--PNEIGSD-----------AANAAA---EGPVLIEDIDAGGF--------  101 (226)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhcCCEEec--HHHcchH-----------HHHhhh---cCeEEEECCCCCCC--------
Confidence            48999999999999999999887665433  2222211           111111   14899999997621        


Q ss_pred             CcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc---chhccCCCCcc--ceeecCCCCHHHHHHHHHHHhcCCCCC
Q 007255          406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI---DAALMRPGRFD--LVLYVPPPDLEARHEILRVHTRNMKVG  480 (611)
Q Consensus       406 ~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l---d~al~r~gRf~--~~i~~~~p~~~~r~~il~~~~~~~~~~  480 (611)
                      .    .   .+|...++.+...++.++|+++..|..+   .+.+.+  |+.  .++.+..|+.++|.++++..++...+.
T Consensus       102 ~----~---~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~S--Rl~~gl~~~l~~pd~e~~~~iL~~~~~~~~~~  172 (226)
T PRK09087        102 D----E---TGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKS--RLKAATVVEIGEPDDALLSQVIFKLFADRQLY  172 (226)
T ss_pred             C----H---HHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHH--HHhCCceeecCCCCHHHHHHHHHHHHHHcCCC
Confidence            0    1   2233333333455677787777666643   567777  875  799999999999999999887765554


Q ss_pred             -CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhh
Q 007255          481 -DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDS  532 (611)
Q Consensus       481 -~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~  532 (611)
                       ++..++.|++...| +.+.+..++......+...   .++++...+..++..
T Consensus       173 l~~ev~~~La~~~~r-~~~~l~~~l~~L~~~~~~~---~~~it~~~~~~~l~~  221 (226)
T PRK09087        173 VDPHVVYYLVSRMER-SLFAAQTIVDRLDRLALER---KSRITRALAAEVLNE  221 (226)
T ss_pred             CCHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHHHh---CCCCCHHHHHHHHHh
Confidence             34457889998876 6666666666555444433   356777777777754

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.34  E-value=4e-11  Score=121.53  Aligned_cols=184  Identities=17%  Similarity=0.207  Sum_probs=127.9

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcE---------------
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL---------------   81 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~---------------   81 (611)
                      .|++|+|++.+++.|.+.+..            -+.+..+||+||+|+||+++|.++|+.+.+.-               
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~------------~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~h   69 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQ------------NRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNH   69 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHh------------CCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCC
Confidence            368999999999999998854            13467999999999999999999999874321               


Q ss_pred             ---EEEccccccccc-----------------ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHH
Q 007255           82 ---TVISPHSVHKAH-----------------VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVR  141 (611)
Q Consensus        82 ---~~v~~~~~~~~~-----------------~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~  141 (611)
                         ..+.+.......                 ..-....++++.+.+...+..+...|++||++|.|..          .
T Consensus        70 PDl~~i~p~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~----------~  139 (314)
T PRK07399         70 PDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNE----------A  139 (314)
T ss_pred             CCEEEEeccccccccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCH----------H
Confidence               111111000000                 0011234566655555555556678999999998844          5


Q ss_pred             HHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHH
Q 007255          142 IASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAI  221 (611)
Q Consensus       142 ~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~l  221 (611)
                      ..+.|++.+++-      + +.++|..|+.++.+-|.+++  |+ ..+.|++|+.++..+++.........  +.+...+
T Consensus       140 aaNaLLK~LEEP------p-~~~fILi~~~~~~Ll~TI~S--Rc-q~i~f~~l~~~~~~~~L~~~~~~~~~--~~~~~~l  207 (314)
T PRK07399        140 AANALLKTLEEP------G-NGTLILIAPSPESLLPTIVS--RC-QIIPFYRLSDEQLEQVLKRLGDEEIL--NINFPEL  207 (314)
T ss_pred             HHHHHHHHHhCC------C-CCeEEEEECChHhCcHHHHh--hc-eEEecCCCCHHHHHHHHHHhhccccc--hhHHHHH
Confidence            678999999873      2 34667777888999999999  88 48999999999999999876432111  1124677


Q ss_pred             HHhccCCccccHH
Q 007255          222 ATSCNGYVGADLE  234 (611)
Q Consensus       222 a~~~~g~~~~dl~  234 (611)
                      +..++|-.+..+.
T Consensus       208 ~~~a~Gs~~~al~  220 (314)
T PRK07399        208 LALAQGSPGAAIA  220 (314)
T ss_pred             HHHcCCCHHHHHH
Confidence            7777776555443

>PRK08727 hypothetical protein; Validated

Probab=99.34  E-value=7.8e-11  Score=114.94  Aligned_cols=147  Identities=21%  Similarity=0.318  Sum_probs=95.0

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALC  129 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~  129 (611)
                      ...++|+||+|||||+++++++..+   +....+++..++.        ..+.+.++...      +..+|+|||++.+.
T Consensus        41 ~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~--------~~~~~~~~~l~------~~dlLiIDDi~~l~  106 (233)
T PRK08727         41 SDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAA--------GRLRDALEALE------GRSLVALDGLESIA  106 (233)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhh--------hhHHHHHHHHh------cCCEEEEeCccccc
Confidence            3679999999999999999997765   4455566544322        12223333332      24599999999876


Q ss_pred             CCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccc---cHHhhccCCc--ceEEEccCCCHHHHHHHHH
Q 007255          130 PRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI---DPALRRSGRF--DAEVEVTVPTAEERFEILK  204 (611)
Q Consensus       130 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l---~~~l~~~~Rf--~~~i~~~~p~~~~r~~Il~  204 (611)
                      ...        .....++.+++......    .-+++.+..+|..+   ++++++  ||  ...+.+++|+.+++.+|++
T Consensus       107 ~~~--------~~~~~lf~l~n~~~~~~----~~vI~ts~~~p~~l~~~~~dL~S--Rl~~~~~~~l~~~~~e~~~~iL~  172 (233)
T PRK08727        107 GQR--------EDEVALFDFHNRARAAG----ITLLYTARQMPDGLALVLPDLRS--RLAQCIRIGLPVLDDVARAAVLR  172 (233)
T ss_pred             CCh--------HHHHHHHHHHHHHHHcC----CeEEEECCCChhhhhhhhHHHHH--HHhcCceEEecCCCHHHHHHHHH
Confidence            432        22345555555432211    12444444456644   699998  75  4678999999999999999


Q ss_pred             HhhcCCCCCC-cccHHHHHHhccC
Q 007255          205 LYTKKVPLDA-NVDLEAIATSCNG  227 (611)
Q Consensus       205 ~~~~~~~~~~-~~~~~~la~~~~g  227 (611)
                      .++....+.. +..+..++..+.|
T Consensus       173 ~~a~~~~l~l~~e~~~~La~~~~r  196 (233)
T PRK08727        173 ERAQRRGLALDEAAIDWLLTHGER  196 (233)
T ss_pred             HHHHHcCCCCCHHHHHHHHHhCCC
Confidence            8776544432 2347788887663

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=99.34  E-value=1.5e-11  Score=118.59  Aligned_cols=167  Identities=25%  Similarity=0.375  Sum_probs=102.0

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccccccccchHH-HHHHHHHHHHhhhhcCCCeEEEEcccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEK-ALREAFSQASSHALSGKPSVVFIDEID  126 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~~~~~~~~~~-~l~~~f~~~~~~~~~~~~~il~IDeid  126 (611)
                      .++++|+||+|+|||+|++++++++     +..++++++.++...+...... .+..+.+...      ...+|+|||++
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~~~~~~~~~~~~~~~~------~~DlL~iDDi~  107 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFADALRDGEIEEFKDRLR------SADLLIIDDIQ  107 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHHHHHTTSHHHHHHHHC------TSSEEEEETGG
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHHHHHHcccchhhhhhhh------cCCEEEEecch
Confidence            3579999999999999999998875     5678888877765433221111 1111111111      24599999999


Q ss_pred             ccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc---cccHHhhccCCcc--eEEEccCCCHHHHHH
Q 007255          127 ALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRFD--AEVEVTVPTAEERFE  201 (611)
Q Consensus       127 ~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~---~l~~~l~~~~Rf~--~~i~~~~p~~~~r~~  201 (611)
                      .+...        ..++..++.+++......    ..+++++...|.   .+++.+.+  ||.  ..+.+.+|+.++|.+
T Consensus       108 ~l~~~--------~~~q~~lf~l~n~~~~~~----k~li~ts~~~P~~l~~~~~~L~S--Rl~~Gl~~~l~~pd~~~r~~  173 (219)
T PF00308_consen  108 FLAGK--------QRTQEELFHLFNRLIESG----KQLILTSDRPPSELSGLLPDLRS--RLSWGLVVELQPPDDEDRRR  173 (219)
T ss_dssp             GGTTH--------HHHHHHHHHHHHHHHHTT----SEEEEEESS-TTTTTTS-HHHHH--HHHCSEEEEE----HHHHHH
T ss_pred             hhcCc--------hHHHHHHHHHHHHHHhhC----CeEEEEeCCCCccccccChhhhh--hHhhcchhhcCCCCHHHHHH
Confidence            88542        245666776666543322    235555545555   45789988  664  689999999999999


Q ss_pred             HHHHhhcCCCCCCccc-HHHHHHhccCCccccHHHHHHHH
Q 007255          202 ILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       202 Il~~~~~~~~~~~~~~-~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      |++.+....++.-+.+ ++.++.... .+.+++..+++..
T Consensus       174 il~~~a~~~~~~l~~~v~~~l~~~~~-~~~r~L~~~l~~l  212 (219)
T PF00308_consen  174 ILQKKAKERGIELPEEVIEYLARRFR-RDVRELEGALNRL  212 (219)
T ss_dssp             HHHHHHHHTT--S-HHHHHHHHHHTT-SSHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCcHHHHHHHHHhhc-CCHHHHHHHHHHH
Confidence            9999888777664433 566666654 3455565555543

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.33  E-value=1.4e-11  Score=118.70  Aligned_cols=130  Identities=31%  Similarity=0.362  Sum_probs=91.4

Q ss_pred             ccchhHHHHHHHHHhhccCCChhHHhhcC----C-CCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc-ccc
Q 007255          292 IGGLRDLKKKLQQAVEWPIKHSTAFSRLG----I-SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYV  365 (611)
Q Consensus       292 i~g~~~~k~~l~~~~~~~~~~~~~~~~~~----~-~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~-~~~  365 (611)
                      ++|++.+|+.|.-++-   +|-.+.....    + -...++||.||+|||||.||+.+|..++.||..-++..+.. .|+
T Consensus        63 VIGQe~AKKvLsVAVY---NHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEAGYV  139 (408)
T COG1219          63 VIGQEQAKKVLSVAVY---NHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYV  139 (408)
T ss_pred             eecchhhhceeeeeeh---hHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhcccc
Confidence            6788888877654332   1211111110    1 12357999999999999999999999999999999988875 699


Q ss_pred             cchHHH-HHHHHHHH----HhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC
Q 007255          366 GESEAL-LRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL  424 (611)
Q Consensus       366 g~~~~~-~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~  424 (611)
                      |+..++ +..++..+    ......|+||||||.+..+-...+-..+-...-++.+||+.++|.
T Consensus       140 GEDVENillkLlqaadydV~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGT  203 (408)
T COG1219         140 GEDVENILLKLLQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGT  203 (408)
T ss_pred             chhHHHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCc
Confidence            986543 44444433    123345999999999988765555444444567899999999974

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=99.33  E-value=5e-11  Score=120.40  Aligned_cols=155  Identities=12%  Similarity=0.153  Sum_probs=108.5

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCc------------------------EEeecchhhccccccchHHHHHHHHH
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEAS------------------------FFSLSGAELYSMYVGESEALLRNTFQ  377 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------------------------~~~~~~~~~~~~~~g~~~~~~~~~~~  377 (611)
                      +.++++||+||+|+||+++|+++|..+.|.                        ++.+.+.+  ++.  -....++.+.+
T Consensus        22 rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~--~~~--I~id~iR~l~~   97 (325)
T PRK06871         22 LGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPID--NKD--IGVDQVREINE   97 (325)
T ss_pred             CcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEcccc--CCC--CCHHHHHHHHH
Confidence            567899999999999999999999988552                        11121110  011  12344555554


Q ss_pred             HHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCcc
Q 007255          378 RARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFD  453 (611)
Q Consensus       378 ~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~  453 (611)
                      .+..    ..-.|++||++|.+              +....|.||+.|+  ++++++++|.+|+.++.+.|.+++  |+.
T Consensus        98 ~~~~~~~~g~~KV~iI~~a~~m--------------~~~AaNaLLKtLE--EPp~~~~fiL~t~~~~~llpTI~S--RC~  159 (325)
T PRK06871         98 KVSQHAQQGGNKVVYIQGAERL--------------TEAAANALLKTLE--EPRPNTYFLLQADLSAALLPTIYS--RCQ  159 (325)
T ss_pred             HHhhccccCCceEEEEechhhh--------------CHHHHHHHHHHhc--CCCCCeEEEEEECChHhCchHHHh--hce
Confidence            4432    23349999999977              4667899999999  799999999999999999999998  988


Q ss_pred             ceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHH
Q 007255          454 LVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLC  504 (611)
Q Consensus       454 ~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~  504 (611)
                       .+.|++|+.++..+.+.....    ..+.....++..+.| ++.....++
T Consensus       160 -~~~~~~~~~~~~~~~L~~~~~----~~~~~~~~~~~l~~g-~p~~A~~~~  204 (325)
T PRK06871        160 -TWLIHPPEEQQALDWLQAQSS----AEISEILTALRINYG-RPLLALTFL  204 (325)
T ss_pred             -EEeCCCCCHHHHHHHHHHHhc----cChHHHHHHHHHcCC-CHHHHHHHh
Confidence             889999999988887774321    122234555666666 344333333

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=99.33  E-value=1.4e-11  Score=111.09  Aligned_cols=137  Identities=34%  Similarity=0.533  Sum_probs=91.3

Q ss_pred             chhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchHH
Q 007255          294 GLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEA  370 (611)
Q Consensus       294 g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~~  370 (611)
                      |.+...+.+...+..             ...++++++||||||||++++.+++.+   +.+++.++..............
T Consensus         2 ~~~~~~~~i~~~~~~-------------~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~   68 (151)
T cd00009           2 GQEEAIEALREALEL-------------PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELF   68 (151)
T ss_pred             chHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHh
Confidence            445555555555442             244679999999999999999999998   8889988887765533222111


Q ss_pred             H---HHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC----CCCeEEEEecCCCc--c
Q 007255          371 L---LRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ----AKGILVLAATNRPH--A  441 (611)
Q Consensus       371 ~---~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~----~~~~~vI~~tn~~~--~  441 (611)
                      .   ....+.......+.++++||++.+.              ......++..+.....    ..++.+|+++|.+.  .
T Consensus        69 ~~~~~~~~~~~~~~~~~~~lilDe~~~~~--------------~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~  134 (151)
T cd00009          69 GHFLVRLLFELAEKAKPGVLFIDEIDSLS--------------RGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGD  134 (151)
T ss_pred             hhhhHhHHHHhhccCCCeEEEEeChhhhh--------------HHHHHHHHHHHHhcCceeccCCCeEEEEecCccccCC
Confidence            1   1122233444567899999998761              1223445454443332    46788888998877  6


Q ss_pred             cchhccCCCCccceeecC
Q 007255          442 IDAALMRPGRFDLVLYVP  459 (611)
Q Consensus       442 ld~al~r~gRf~~~i~~~  459 (611)
                      +++.+.+  ||+..+.++
T Consensus       135 ~~~~~~~--r~~~~i~~~  150 (151)
T cd00009         135 LDRALYD--RLDIRIVIP  150 (151)
T ss_pred             cChhHHh--hhccEeecC
Confidence            7777777  998777775

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.33  E-value=2.5e-11  Score=123.53  Aligned_cols=165  Identities=24%  Similarity=0.311  Sum_probs=106.7

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh-------CCcEE-------
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-------GAHLT-------   82 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l-------~~~~~-------   82 (611)
                      +|+.|+|++++|..|.-.+..|             ...+++|.|++|+|||+++++++..+       +.++-       
T Consensus         2 pf~~ivgq~~~~~al~~~~~~~-------------~~g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~   68 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVIDP-------------KIGGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPE   68 (337)
T ss_pred             CccccccHHHHHHHHHHHhcCC-------------CCCeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCcc
Confidence            5789999999999987665443             23689999999999999999999877       22111       


Q ss_pred             --EEcccc----------------cccccccchHHHH------HHHHHH-----HHhhhhcCCCeEEEEccccccCCCCC
Q 007255           83 --VISPHS----------------VHKAHVGESEKAL------REAFSQ-----ASSHALSGKPSVVFIDEIDALCPRRD  133 (611)
Q Consensus        83 --~v~~~~----------------~~~~~~~~~~~~l------~~~f~~-----~~~~~~~~~~~il~IDeid~l~~~~~  133 (611)
                        ..+|..                +.+...+.++..+      ...+..     .........+++||+||++.+.+   
T Consensus        69 ~~~~~~r~~~~~~~~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L~~---  145 (337)
T TIGR02030        69 MMCEEVRIRVDSQEPLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNLLED---  145 (337)
T ss_pred             ccChHHhhhhhcccccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHhCCH---
Confidence              000000                0010011111111      111000     00011123457999999998854   


Q ss_pred             CCchhhHHHHHHHHHHHhcCCC-------CCCCCCcEEEEEeecCcc-cccHHhhccCCcceEEEccCCCH-HHHHHHHH
Q 007255          134 HRREQDVRIASQLFTLMDSNKP-------SKTSVPHVVVVASTNRVD-AIDPALRRSGRFDAEVEVTVPTA-EERFEILK  204 (611)
Q Consensus       134 ~~~~~~~~~~~~ll~~l~~~~~-------~~~~~~~v~ii~ttn~~~-~l~~~l~~~~Rf~~~i~~~~p~~-~~r~~Il~  204 (611)
                             ..+..|++.|+....       ....+.++++|+|+|+.+ .+++++..  ||...+.++.|+. +++.+|++
T Consensus       146 -------~~Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~eg~l~~~Lld--Rf~l~i~l~~p~~~eer~eIL~  216 (337)
T TIGR02030       146 -------HLVDVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGLHAEIRTVRDVELRVEIVE  216 (337)
T ss_pred             -------HHHHHHHHHHHhCCeEEEECCEEEEcCCCEEEEeccccccCCCCHHHHh--hcceEEECCCCCCHHHHHHHHH
Confidence                   678888998876420       111234689999998765 78999998  9999999999976 88889988


Q ss_pred             Hh
Q 007255          205 LY  206 (611)
Q Consensus       205 ~~  206 (611)
                      ..
T Consensus       217 ~~  218 (337)
T TIGR02030       217 RR  218 (337)
T ss_pred             hh
Confidence            74

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=99.33  E-value=3.6e-11  Score=122.81  Aligned_cols=157  Identities=15%  Similarity=0.208  Sum_probs=109.6

Q ss_pred             CCCCCCcceeCCCCCChHHHHHHHHHHhCCc------------------------EEeecchhhccccccchHHHHHHHH
Q 007255          321 ISPVRGALLHGPPGCSKTTLAKAAAHAAEAS------------------------FFSLSGAELYSMYVGESEALLRNTF  376 (611)
Q Consensus       321 ~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------------------------~~~~~~~~~~~~~~g~~~~~~~~~~  376 (611)
                      .+.++++||+||+|+||+++|.++|..+.|.                        +..+.+..- .  ..-.-..++.+.
T Consensus        21 ~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~-~--~~I~idqiR~l~   97 (334)
T PRK07993         21 GRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKG-K--SSLGVDAVREVT   97 (334)
T ss_pred             CCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccc-c--ccCCHHHHHHHH
Confidence            3667899999999999999999999988542                        111211100 0  001233455555


Q ss_pred             HHHH----hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCc
Q 007255          377 QRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRF  452 (611)
Q Consensus       377 ~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf  452 (611)
                      +.+.    .....|++||++|.+              +....|.||+.|+  +++++++||.+|+.|+.+.|.+++  |+
T Consensus        98 ~~~~~~~~~g~~kV~iI~~ae~m--------------~~~AaNaLLKtLE--EPp~~t~fiL~t~~~~~lLpTIrS--RC  159 (334)
T PRK07993         98 EKLYEHARLGGAKVVWLPDAALL--------------TDAAANALLKTLE--EPPENTWFFLACREPARLLATLRS--RC  159 (334)
T ss_pred             HHHhhccccCCceEEEEcchHhh--------------CHHHHHHHHHHhc--CCCCCeEEEEEECChhhChHHHHh--cc
Confidence            4443    233459999999977              4678899999999  799999999999999999999998  99


Q ss_pred             cceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHH
Q 007255          453 DLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLC  504 (611)
Q Consensus       453 ~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~  504 (611)
                      . .+.|++|+.++..+.+...   .+. +..+...++..+.| ++.....++
T Consensus       160 q-~~~~~~~~~~~~~~~L~~~---~~~-~~~~a~~~~~la~G-~~~~Al~l~  205 (334)
T PRK07993        160 R-LHYLAPPPEQYALTWLSRE---VTM-SQDALLAALRLSAG-APGAALALL  205 (334)
T ss_pred             c-cccCCCCCHHHHHHHHHHc---cCC-CHHHHHHHHHHcCC-CHHHHHHHh
Confidence            8 6899999998888777532   122 22335566777777 444444443

>PHA02244 ATPase-like protein

Probab=99.32  E-value=3.8e-11  Score=121.07  Aligned_cols=130  Identities=21%  Similarity=0.248  Sum_probs=85.7

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc--hHHHHH-HHHHHHHhhhhcCCCeEEEEcccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE--SEKALR-EAFSQASSHALSGKPSVVFIDEIDAL  128 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~--~~~~l~-~~f~~~~~~~~~~~~~il~IDeid~l  128 (611)
                      .+.++||+||||||||++|+++|..++.+++.++...-.....|.  ....+. ..|-.+     ..++++|+|||++.+
T Consensus       118 ~~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~~g~~~dgpLl~A-----~~~GgvLiLDEId~a  192 (383)
T PHA02244        118 ANIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDANGKFHETPFYEA-----FKKGGLFFIDEIDAS  192 (383)
T ss_pred             cCCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccccccccchHHHHH-----hhcCCEEEEeCcCcC
Confidence            457899999999999999999999999999988743100000010  000010 111111     224789999999987


Q ss_pred             CCCCCCCchhhHHHHHHHHHHHhcCC-----CCCCCCCcEEEEEeecCc-----------ccccHHhhccCCcceEEEcc
Q 007255          129 CPRRDHRREQDVRIASQLFTLMDSNK-----PSKTSVPHVVVVASTNRV-----------DAIDPALRRSGRFDAEVEVT  192 (611)
Q Consensus       129 ~~~~~~~~~~~~~~~~~ll~~l~~~~-----~~~~~~~~v~ii~ttn~~-----------~~l~~~l~~~~Rf~~~i~~~  192 (611)
                      .+          .++..|...++...     ......+++.+|+|+|+.           ..+++++++  ||. .++++
T Consensus       193 ~p----------~vq~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~AllD--RFv-~I~~d  259 (383)
T PHA02244        193 IP----------EALIIINSAIANKFFDFADERVTAHEDFRVISAGNTLGKGADHIYVARNKIDGATLD--RFA-PIEFD  259 (383)
T ss_pred             CH----------HHHHHHHHHhccCeEEecCcEEecCCCEEEEEeeCCCccCcccccCCCcccCHHHHh--hcE-EeeCC
Confidence            55          45666666665321     111223578999999983           477999998  995 79999


Q ss_pred             CCCHHHH
Q 007255          193 VPTAEER  199 (611)
Q Consensus       193 ~p~~~~r  199 (611)
                      .|+..+.
T Consensus       260 yp~~~E~  266 (383)
T PHA02244        260 YDEKIEH  266 (383)
T ss_pred             CCcHHHH
Confidence            9984443

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=99.32  E-value=1.3e-10  Score=119.87  Aligned_cols=216  Identities=21%  Similarity=0.284  Sum_probs=143.9

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----EEeecchhhcccc
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----FFSLSGAELYSMY  364 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----~~~~~~~~~~~~~  364 (611)
                      +.+.+.+...+++...+.-.+.         ...|.++++|||||||||+.++.++.++...     ++++|+......|
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~---------~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~   87 (366)
T COG1474          17 EELPHREEEINQLASFLAPALR---------GERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPY   87 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhc---------CCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHH
Confidence            4477788888888777654332         2344569999999999999999999998433     8888886554421


Q ss_pred             ---------------ccch-HHHHHHHHHHHHh-cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCC
Q 007255          365 ---------------VGES-EALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA  427 (611)
Q Consensus       365 ---------------~g~~-~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  427 (611)
                                     .|.+ ......+++.... ....||++||+|.|..+.+           .++-.|+...+..  .
T Consensus        88 ~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~-----------~~LY~L~r~~~~~--~  154 (366)
T COG1474          88 QVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDG-----------EVLYSLLRAPGEN--K  154 (366)
T ss_pred             HHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccc-----------hHHHHHHhhcccc--c
Confidence                           2222 2233334444333 3455999999999975421           4556666655532  5


Q ss_pred             CCeEEEEecCCCc---ccchhccCCCCcc-ceeecCCCCHHHHHHHHHHHhcCCCCC---CcccH---HHHHHhCCCCCH
Q 007255          428 KGILVLAATNRPH---AIDAALMRPGRFD-LVLYVPPPDLEARHEILRVHTRNMKVG---DDVDL---RSIAEETELFTG  497 (611)
Q Consensus       428 ~~~~vI~~tn~~~---~ld~al~r~gRf~-~~i~~~~p~~~~r~~il~~~~~~~~~~---~~~~~---~~la~~~~g~s~  497 (611)
                      .++.+|+.+|..+   .+|+.+.+  ++. ..|.||+++.++...|++...+.....   ++.-+   ..++....| +.
T Consensus       155 ~~v~vi~i~n~~~~~~~ld~rv~s--~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~G-DA  231 (366)
T COG1474         155 VKVSIIAVSNDDKFLDYLDPRVKS--SLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESG-DA  231 (366)
T ss_pred             eeEEEEEEeccHHHHHHhhhhhhh--ccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCc-cH
Confidence            6789999999875   57888876  554 569999999999999999766543222   22223   333444445 66


Q ss_pred             HHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhh
Q 007255          498 AELEGLCREAGIVALREDISATAVRNRHFQTVKDS  532 (611)
Q Consensus       498 ~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~  532 (611)
                      +-...+|+.|+..|-++.  ...++.++...|...
T Consensus       232 R~aidilr~A~eiAe~~~--~~~v~~~~v~~a~~~  264 (366)
T COG1474         232 RKAIDILRRAGEIAEREG--SRKVSEDHVREAQEE  264 (366)
T ss_pred             HHHHHHHHHHHHHHHhhC--CCCcCHHHHHHHHHH
Confidence            777788899998888765  445666666666433

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=99.31  E-value=1.2e-11  Score=127.77  Aligned_cols=149  Identities=23%  Similarity=0.279  Sum_probs=108.1

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC---------------------
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE---------------------  349 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~---------------------  349 (611)
                      ++.|.+.+...+.......          + ..++.+||+||||+|||++|.++|+++.                     
T Consensus         2 ~~~~~~~~~~~l~~~~~~~----------~-~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~   70 (325)
T COG0470           2 ELVPWQEAVKRLLVQALES----------G-RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPA   70 (325)
T ss_pred             CcccchhHHHHHHHHHHhc----------C-CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhh
Confidence            4566777777666665520          1 3345799999999999999999999986                     


Q ss_pred             ---CcEEeecchhhccccccchHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhc
Q 007255          350 ---ASFFSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (611)
Q Consensus       350 ---~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~  422 (611)
                         -.++.+++++.....  -....++.+-+.....    ...|++|||+|.+              +....+.+++.++
T Consensus        71 ~~~~d~lel~~s~~~~~~--i~~~~vr~~~~~~~~~~~~~~~kviiidead~m--------------t~~A~nallk~lE  134 (325)
T COG0470          71 GNHPDFLELNPSDLRKID--IIVEQVRELAEFLSESPLEGGYKVVIIDEADKL--------------TEDAANALLKTLE  134 (325)
T ss_pred             cCCCceEEecccccCCCc--chHHHHHHHHHHhccCCCCCCceEEEeCcHHHH--------------hHHHHHHHHHHhc
Confidence               467788887754421  2234455554443322    3459999999987              3467899999998


Q ss_pred             CCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHH
Q 007255          423 GLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILR  471 (611)
Q Consensus       423 ~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~  471 (611)
                        +++.+..+|++||.|+.+-+.+.+  |+. .+.|++|+...+....+
T Consensus       135 --ep~~~~~~il~~n~~~~il~tI~S--Rc~-~i~f~~~~~~~~i~~~e  178 (325)
T COG0470         135 --EPPKNTRFILITNDPSKILPTIRS--RCQ-RIRFKPPSRLEAIAWLE  178 (325)
T ss_pred             --cCCCCeEEEEEcCChhhccchhhh--cce-eeecCCchHHHHHHHhh
Confidence              688899999999999999888888  887 78887766555544444

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.31  E-value=9.4e-11  Score=110.78  Aligned_cols=148  Identities=18%  Similarity=0.264  Sum_probs=103.8

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCc------------------------EEEEcccccccccccchHHHHHHHHHH
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAH------------------------LTVISPHSVHKAHVGESEKALREAFSQ  107 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~------------------------~~~v~~~~~~~~~~~~~~~~l~~~f~~  107 (611)
                      .+..+||+||+|+|||++++.+++.+...                        +..+....   .  ......++.+.+.
T Consensus        13 ~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~---~--~~~~~~i~~i~~~   87 (188)
T TIGR00678        13 LAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEG---Q--SIKVDQVRELVEF   87 (188)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEecccc---C--cCCHHHHHHHHHH
Confidence            45789999999999999999999988542                        12221110   0  1123456666666


Q ss_pred             HHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcce
Q 007255          108 ASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDA  187 (611)
Q Consensus       108 ~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~  187 (611)
                      +...+..+...|++|||+|.+..          ..++.|+..++...      ....+|.+++.+..+.+++++  |+. 
T Consensus        88 ~~~~~~~~~~kviiide~~~l~~----------~~~~~Ll~~le~~~------~~~~~il~~~~~~~l~~~i~s--r~~-  148 (188)
T TIGR00678        88 LSRTPQESGRRVVIIEDAERMNE----------AAANALLKTLEEPP------PNTLFILITPSPEKLLPTIRS--RCQ-  148 (188)
T ss_pred             HccCcccCCeEEEEEechhhhCH----------HHHHHHHHHhcCCC------CCeEEEEEECChHhChHHHHh--hcE-
Confidence            65555556678999999998854          44677888887622      235566667777899999998  874 


Q ss_pred             EEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCC
Q 007255          188 EVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGY  228 (611)
Q Consensus       188 ~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~  228 (611)
                      .+.|++|+.++..+++...    +++ +..+..++..++|.
T Consensus       149 ~~~~~~~~~~~~~~~l~~~----gi~-~~~~~~i~~~~~g~  184 (188)
T TIGR00678       149 VLPFPPLSEEALLQWLIRQ----GIS-EEAAELLLALAGGS  184 (188)
T ss_pred             EeeCCCCCHHHHHHHHHHc----CCC-HHHHHHHHHHcCCC
Confidence            8999999999999999876    233 23466777766654

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=99.31  E-value=3.7e-11  Score=108.23  Aligned_cols=144  Identities=34%  Similarity=0.494  Sum_probs=91.0

Q ss_pred             CcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccchHH
Q 007255           23 GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEK   99 (611)
Q Consensus        23 G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~~~   99 (611)
                      |++..++.+...+..             ....+++++||||||||++++.+++.+   +.+++.+++.+...........
T Consensus         2 ~~~~~~~~i~~~~~~-------------~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~   68 (151)
T cd00009           2 GQEEAIEALREALEL-------------PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELF   68 (151)
T ss_pred             chHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHh
Confidence            666777777666533             145789999999999999999999998   7888888877654332211111


Q ss_pred             HHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc--cccH
Q 007255          100 ALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD--AIDP  177 (611)
Q Consensus       100 ~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~--~l~~  177 (611)
                      ... ............++.+|++||++.+.+          .....++..+............+.+|++++...  .+++
T Consensus        69 ~~~-~~~~~~~~~~~~~~~~lilDe~~~~~~----------~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~~  137 (151)
T cd00009          69 GHF-LVRLLFELAEKAKPGVLFIDEIDSLSR----------GAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDR  137 (151)
T ss_pred             hhh-hHhHHHHhhccCCCeEEEEeChhhhhH----------HHHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcCh
Confidence            000 011111112234578999999997722          234455555555432111123578888888766  6788


Q ss_pred             HhhccCCcceEEEcc
Q 007255          178 ALRRSGRFDAEVEVT  192 (611)
Q Consensus       178 ~l~~~~Rf~~~i~~~  192 (611)
                      .+.+  ||+.++.++
T Consensus       138 ~~~~--r~~~~i~~~  150 (151)
T cd00009         138 ALYD--RLDIRIVIP  150 (151)
T ss_pred             hHHh--hhccEeecC
Confidence            8877  887677765

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.31  E-value=2.3e-11  Score=128.93  Aligned_cols=168  Identities=18%  Similarity=0.281  Sum_probs=104.9

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALC  129 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~  129 (611)
                      .++++|+||+|+|||+|++++++++   +..++++++..+...........-...|....     ....+|+|||++.+.
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~~-----~~~dvLiIDDiq~l~  215 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHLVSAIRSGEMQRFRQFY-----RNVDALFIEDIEVFS  215 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHHHHHHhcchHHHHHHHc-----ccCCEEEEcchhhhc
Confidence            3689999999999999999999876   57778888765543221111100011222221     235699999999875


Q ss_pred             CCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc---cccHHhhccCCcc--eEEEccCCCHHHHHHHHH
Q 007255          130 PRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRFD--AEVEVTVPTAEERFEILK  204 (611)
Q Consensus       130 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~---~l~~~l~~~~Rf~--~~i~~~~p~~~~r~~Il~  204 (611)
                      +..        ..+..++..++......    ..++++++..|.   .+++++.+  ||.  ..+.+++|+.+++..|++
T Consensus       216 ~k~--------~~qeelf~l~N~l~~~~----k~IIlts~~~p~~l~~l~~rL~S--R~~~Gl~~~l~~pd~e~r~~iL~  281 (445)
T PRK12422        216 GKG--------ATQEEFFHTFNSLHTEG----KLIVISSTCAPQDLKAMEERLIS--RFEWGIAIPLHPLTKEGLRSFLE  281 (445)
T ss_pred             CCh--------hhHHHHHHHHHHHHHCC----CcEEEecCCCHHHHhhhHHHHHh--hhcCCeEEecCCCCHHHHHHHHH
Confidence            432        22344444443321111    234555545454   56799998  874  789999999999999999


Q ss_pred             HhhcCCCCCCc-ccHHHHHHhccCCccccHHHHHHHH
Q 007255          205 LYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       205 ~~~~~~~~~~~-~~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      ..+...++.-+ ..++.++....+ +.+.+...+...
T Consensus       282 ~k~~~~~~~l~~evl~~la~~~~~-dir~L~g~l~~l  317 (445)
T PRK12422        282 RKAEALSIRIEETALDFLIEALSS-NVKSLLHALTLL  317 (445)
T ss_pred             HHHHHcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH
Confidence            98877654433 236667776654 334454444443

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.31  E-value=1.1e-10  Score=113.85  Aligned_cols=178  Identities=21%  Similarity=0.245  Sum_probs=109.8

Q ss_pred             cccccC--CcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccc
Q 007255           17 AEEAIG--GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHK   91 (611)
Q Consensus        17 ~~~~i~--G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~   91 (611)
                      +|++.+  +.+..+..+.++..            +.....+++|+||+|||||++++++++++   +..++.+++..+..
T Consensus        16 ~~d~f~~~~~~~~~~~l~~~~~------------~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~~   83 (227)
T PRK08903         16 TFDNFVAGENAELVARLRELAA------------GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPLL   83 (227)
T ss_pred             hhcccccCCcHHHHHHHHHHHh------------ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhHH
Confidence            455544  45666666666542            12345799999999999999999999876   55777777665431


Q ss_pred             ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC
Q 007255           92 AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (611)
Q Consensus        92 ~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~  171 (611)
                      .            +..      .....+|+|||+|.+.+          ..+..++..++......   ..+++++++..
T Consensus        84 ~------------~~~------~~~~~~liiDdi~~l~~----------~~~~~L~~~~~~~~~~~---~~~vl~~~~~~  132 (227)
T PRK08903         84 A------------FDF------DPEAELYAVDDVERLDD----------AQQIALFNLFNRVRAHG---QGALLVAGPAA  132 (227)
T ss_pred             H------------Hhh------cccCCEEEEeChhhcCc----------hHHHHHHHHHHHHHHcC---CcEEEEeCCCC
Confidence            1            111      11356999999998743          22345555554422211   12344443333


Q ss_pred             cc--cccHHhhccCCc--ceEEEccCCCHHHHHHHHHHhhcCCCCCCcc-cHHHHHHhccCCccccHHHHHHHH
Q 007255          172 VD--AIDPALRRSGRF--DAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       172 ~~--~l~~~l~~~~Rf--~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~-~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      +.  .+.+.+.+  ||  ...+.+++|+.+++..++..........-+. -++.++..+.| +.+.+..+++..
T Consensus       133 ~~~~~l~~~L~s--r~~~~~~i~l~pl~~~~~~~~l~~~~~~~~v~l~~~al~~L~~~~~g-n~~~l~~~l~~l  203 (227)
T PRK08903        133 PLALPLREDLRT--RLGWGLVYELKPLSDADKIAALKAAAAERGLQLADEVPDYLLTHFRR-DMPSLMALLDAL  203 (227)
T ss_pred             HHhCCCCHHHHH--HHhcCeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccC-CHHHHHHHHHHH
Confidence            32  35677877  65  4689999999999999998876655443322 36666764443 445555555553

>PRK04132 replication factor C small subunit; Provisional

Probab=99.31  E-value=4.6e-11  Score=133.62  Aligned_cols=157  Identities=20%  Similarity=0.207  Sum_probs=121.2

Q ss_pred             CcceeC--CCCCChHHHHHHHHHHh-----CCcEEeecchhhccccccchHHHHHHHHHHHHhcC------CcEEEEccc
Q 007255          326 GALLHG--PPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEALLRNTFQRARLAA------PSIIFFDEA  392 (611)
Q Consensus       326 ~~Ll~G--p~G~GKT~la~ala~~~-----~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~------p~il~iDei  392 (611)
                      +-+..|  |++.|||++|+++|+++     +.+++.+++++..+      -..++.+.+.+....      ..|++|||+
T Consensus       566 ~~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rg------id~IR~iIk~~a~~~~~~~~~~KVvIIDEa  639 (846)
T PRK04132        566 HNFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERG------INVIREKVKEFARTKPIGGASFKIIFLDEA  639 (846)
T ss_pred             hhhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCccc------HHHHHHHHHHHHhcCCcCCCCCEEEEEECc
Confidence            456779  99999999999999998     56799999987533      224555555443222      259999999


Q ss_pred             ccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHH
Q 007255          393 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRV  472 (611)
Q Consensus       393 d~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~  472 (611)
                      |.+              +...++.|++.|+  ++++++.||++||.++.+.+++++  |+. .+.|++|+.++....++.
T Consensus       640 D~L--------------t~~AQnALLk~lE--ep~~~~~FILi~N~~~kIi~tIrS--RC~-~i~F~~ls~~~i~~~L~~  700 (846)
T PRK04132        640 DAL--------------TQDAQQALRRTME--MFSSNVRFILSCNYSSKIIEPIQS--RCA-IFRFRPLRDEDIAKRLRY  700 (846)
T ss_pred             ccC--------------CHHHHHHHHHHhh--CCCCCeEEEEEeCChhhCchHHhh--hce-EEeCCCCCHHHHHHHHHH
Confidence            988              2456899999998  567889999999999999999998  986 899999999999988887


Q ss_pred             HhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHH
Q 007255          473 HTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAG  508 (611)
Q Consensus       473 ~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~  508 (611)
                      .+.+.++. ++..+..++..++| +.+...++++.+.
T Consensus       701 I~~~Egi~i~~e~L~~Ia~~s~G-DlR~AIn~Lq~~~  736 (846)
T PRK04132        701 IAENEGLELTEEGLQAILYIAEG-DMRRAINILQAAA  736 (846)
T ss_pred             HHHhcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHH
Confidence            66654443 45568899999888 5555555555443

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.30  E-value=6.1e-11  Score=126.16  Aligned_cols=169  Identities=20%  Similarity=0.257  Sum_probs=105.9

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccccccccchH-HHHHHHHHHHHhhhhcCCCeEEEEcccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESE-KALREAFSQASSHALSGKPSVVFIDEID  126 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~~~~~~~~~-~~l~~~f~~~~~~~~~~~~~il~IDeid  126 (611)
                      .++++||||+|+|||+|++++++++     +..++++++.++......... ..+.. |....    ..++.+|+|||++
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~~~~~~~~~~~~-f~~~~----~~~~dvLlIDDi~  204 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKLNE-FREKY----RKKVDVLLIDDVQ  204 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHhcccHHH-HHHHH----HhcCCEEEEechh
Confidence            4679999999999999999999986     356778887765433221110 01111 21111    1136799999999


Q ss_pred             ccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc---cccHHhhccCCc--ceEEEccCCCHHHHHH
Q 007255          127 ALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRF--DAEVEVTVPTAEERFE  201 (611)
Q Consensus       127 ~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~---~l~~~l~~~~Rf--~~~i~~~~p~~~~r~~  201 (611)
                      .+....        ..+..++..++......    ..+++++.+.|.   .+.+++.+  ||  ...+.+++|+.+.|..
T Consensus       205 ~l~~~~--------~~q~elf~~~n~l~~~~----k~iIitsd~~p~~l~~l~~rL~S--R~~~gl~v~i~~pd~e~r~~  270 (440)
T PRK14088        205 FLIGKT--------GVQTELFHTFNELHDSG----KQIVICSDREPQKLSEFQDRLVS--RFQMGLVAKLEPPDEETRKK  270 (440)
T ss_pred             hhcCcH--------HHHHHHHHHHHHHHHcC----CeEEEECCCCHHHHHHHHHHHhh--HHhcCceEeeCCCCHHHHHH
Confidence            875431        22334444443322111    235555555555   45678888  66  4578999999999999


Q ss_pred             HHHHhhcCCCCCC-cccHHHHHHhccCCccccHHHHHHHHH
Q 007255          202 ILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       202 Il~~~~~~~~~~~-~~~~~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                      |++..+....+.- +..+..++....| +.+.++.++....
T Consensus       271 IL~~~~~~~~~~l~~ev~~~Ia~~~~~-~~R~L~g~l~~l~  310 (440)
T PRK14088        271 IARKMLEIEHGELPEEVLNFVAENVDD-NLRRLRGAIIKLL  310 (440)
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHhcccc-CHHHHHHHHHHHH
Confidence            9999887544432 2347777777664 4566666665543

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.30  E-value=7.9e-11  Score=125.02  Aligned_cols=226  Identities=19%  Similarity=0.222  Sum_probs=143.8

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhc--cCCChhHHhhc-------------------CCCCCCCcceeCCCCCChHHHH
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEW--PIKHSTAFSRL-------------------GISPVRGALLHGPPGCSKTTLA  341 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~--~~~~~~~~~~~-------------------~~~~~~~~Ll~Gp~G~GKT~la  341 (611)
                      .+.+..|.|+.|.+.+.+.+..++..  |--+-..+.++                   +.++.+-+||+||||-|||+||
T Consensus       264 ky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGlGKTTLA  343 (877)
T KOG1969|consen  264 KYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGLGKTTLA  343 (877)
T ss_pred             ccChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCCChhHHH
Confidence            44556788999999888887776652  00000111111                   2344467899999999999999


Q ss_pred             HHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHH----hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHH
Q 007255          342 KAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (611)
Q Consensus       342 ~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~l  417 (611)
                      +.+|..+|..++++++++-..  .......+..+...-.    ...|..|+|||||.-              ...++..+
T Consensus       344 HViAkqaGYsVvEINASDeRt--~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa--------------~~~~Vdvi  407 (877)
T KOG1969|consen  344 HVIAKQAGYSVVEINASDERT--APMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGA--------------PRAAVDVI  407 (877)
T ss_pred             HHHHHhcCceEEEeccccccc--HHHHHHHHHHHHhhccccccCCCcceEEEecccCC--------------cHHHHHHH
Confidence            999999999999999988544  2222333333332221    256889999999832              13445555


Q ss_pred             HHHhcCC------CCC--C-----------CeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCC
Q 007255          418 LTEMDGL------EQA--K-----------GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMK  478 (611)
Q Consensus       418 l~~l~~~------~~~--~-----------~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~  478 (611)
                      +..+..-      .+.  +           ..-||++||....  |||+..--|.+++.|++|......+-|+..+....
T Consensus       408 lslv~a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLYa--PaLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE~  485 (877)
T KOG1969|consen  408 LSLVKATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLYA--PALRPLRPFAEIIAFVPPSQSRLVERLNEICHREN  485 (877)
T ss_pred             HHHHHhhcchhhcCcccchhhhhhhccccccCCEEEEecCccc--hhhhhcccceEEEEecCCChhHHHHHHHHHHhhhc
Confidence            5555410      000  0           1457888886553  44432225789999999999988888887776655


Q ss_pred             CCCc-ccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          479 VGDD-VDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       479 ~~~~-~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      ...+ ..+..|++.++    .||+.+++.....+....-.+..+...+.....
T Consensus       486 mr~d~~aL~~L~el~~----~DIRsCINtLQfLa~~~~r~ds~i~~~~i~a~~  534 (877)
T KOG1969|consen  486 MRADSKALNALCELTQ----NDIRSCINTLQFLASNVDRRDSSISVKLICAKN  534 (877)
T ss_pred             CCCCHHHHHHHHHHhc----chHHHHHHHHHHHHHhcccccccchhhhhhhhh
Confidence            4432 34566666554    599999998888777665444445554444433

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.29  E-value=7.2e-11  Score=120.03  Aligned_cols=159  Identities=19%  Similarity=0.309  Sum_probs=105.7

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC-------CcEEeecc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE-------ASFFSLSG  357 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~-------~~~~~~~~  357 (611)
                      +...|++|+|++++|..|...+..             +...++||.||+|||||++|++++..+.       ++|. ..+
T Consensus        12 ~~~pf~~ivGq~~~k~al~~~~~~-------------p~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~-~~p   77 (350)
T CHL00081         12 PVFPFTAIVGQEEMKLALILNVID-------------PKIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFN-SHP   77 (350)
T ss_pred             CCCCHHHHhChHHHHHHHHHhccC-------------CCCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCC-CCC
Confidence            456799999999999999887764             2335899999999999999999988762       2222 000


Q ss_pred             h-------hhccc---------------c----ccchHHH------HHHHHHHH---------HhcCCcEEEEccccccc
Q 007255          358 A-------ELYSM---------------Y----VGESEAL------LRNTFQRA---------RLAAPSIIFFDEADVVG  396 (611)
Q Consensus       358 ~-------~~~~~---------------~----~g~~~~~------~~~~~~~a---------~~~~p~il~iDeid~l~  396 (611)
                      .       ++.+.               +    .|.++..      +...|...         ...+..+||+||++.+ 
T Consensus        78 ~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL-  156 (350)
T CHL00081         78 SDPELMSDEVREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLL-  156 (350)
T ss_pred             CChhhhchhhhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhC-
Confidence            0       00000               0    0111111      11111111         0122359999999987 


Q ss_pred             ccCCCCCCCCcchhHHHHHHHHHHhcCC-----------CCCCCeEEEEecCCCc-ccchhccCCCCccceeecCCCC-H
Q 007255          397 AKRGGSSSTSITVGERLLSTLLTEMDGL-----------EQAKGILVLAATNRPH-AIDAALMRPGRFDLVLYVPPPD-L  463 (611)
Q Consensus       397 ~~~~~~~~~~~~~~~~~~~~ll~~l~~~-----------~~~~~~~vI~~tn~~~-~ld~al~r~gRf~~~i~~~~p~-~  463 (611)
                                   ....++.|+..|+..           ..+.++++|+|.|..+ .+.++++.  ||..++.+..|+ .
T Consensus       157 -------------~~~~Q~~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~Lld--Rf~l~i~l~~~~~~  221 (350)
T CHL00081        157 -------------DDHLVDILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGMHAEIRTVKDP  221 (350)
T ss_pred             -------------CHHHHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHH--HhCceeecCCCCCh
Confidence                         245677788777531           1234688888777655 58999998  999999999997 5


Q ss_pred             HHHHHHHHHH
Q 007255          464 EARHEILRVH  473 (611)
Q Consensus       464 ~~r~~il~~~  473 (611)
                      +.+.+|++..
T Consensus       222 ~~e~~il~~~  231 (350)
T CHL00081        222 ELRVKIVEQR  231 (350)
T ss_pred             HHHHHHHHhh
Confidence            9999999864

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=99.29  E-value=5.3e-11  Score=133.80  Aligned_cols=144  Identities=24%  Similarity=0.287  Sum_probs=101.6

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc------ccc-cccchHHHHHHHHHHHHhhhhcCCCeEEEEcc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV------HKA-HVGESEKALREAFSQASSHALSGKPSVVFIDE  124 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~------~~~-~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDe  124 (611)
                      ..+++||-|.||+|||+++.++|+..|..++.++.++-      ++. .+++....+  .|..+.-...+..+.++++||
T Consensus      1542 v~kpilLEGsPGVGKTSlItaLAr~tG~kliRINLSeQTdL~DLfGsd~Pve~~Gef--~w~dapfL~amr~G~WVlLDE 1619 (4600)
T COG5271        1542 VGKPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQTDLCDLFGSDLPVEEGGEF--RWMDAPFLHAMRDGGWVLLDE 1619 (4600)
T ss_pred             cCCceeecCCCCccHHHHHHHHHHHhcCceEEeeccccchHHHHhCCCCCcccCcee--EecccHHHHHhhcCCEEEeeh
Confidence            34799999999999999999999999999999998742      221 122110100  111121112233477999999


Q ss_pred             ccccCCCCCCCchhhHHHHHHHHHHHhcCCC--------CCCCCCcEEEEEeecCcc------cccHHhhccCCcceEEE
Q 007255          125 IDALCPRRDHRREQDVRIASQLFTLMDSNKP--------SKTSVPHVVVVASTNRVD------AIDPALRRSGRFDAEVE  190 (611)
Q Consensus       125 id~l~~~~~~~~~~~~~~~~~ll~~l~~~~~--------~~~~~~~v~ii~ttn~~~------~l~~~l~~~~Rf~~~i~  190 (611)
                      ++...          ..++..|-.++|....        +....+++.|+++.|+-+      .++..+..  ||. +++
T Consensus      1620 iNLaS----------QSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq~qggGRKgLPkSF~n--RFs-vV~ 1686 (4600)
T COG5271        1620 INLAS----------QSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQDQGGGRKGLPKSFLN--RFS-VVK 1686 (4600)
T ss_pred             hhhhH----------HHHHHHHHHHHhhccccccccccceeeccCCeeeeeecCchhcCCCcccCCHHHhh--hhh-eEE
Confidence            96542          2567778888876322        333457899999999843      78999988  997 789


Q ss_pred             ccCCCHHHHHHHHHHhhcCC
Q 007255          191 VTVPTAEERFEILKLYTKKV  210 (611)
Q Consensus       191 ~~~p~~~~r~~Il~~~~~~~  210 (611)
                      ++.++.++...|........
T Consensus      1687 ~d~lt~dDi~~Ia~~~yp~v 1706 (4600)
T COG5271        1687 MDGLTTDDITHIANKMYPQV 1706 (4600)
T ss_pred             ecccccchHHHHHHhhCCcc
Confidence            99999999999988776543

>PHA02244 ATPase-like protein

Probab=99.28  E-value=1.1e-10  Score=117.79  Aligned_cols=122  Identities=20%  Similarity=0.298  Sum_probs=80.8

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEeecch----hhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccC
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA----ELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR  399 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~----~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~  399 (611)
                      ..++||+||||||||++|+++|..++.+++.++..    ++.+ +..........-|-.+. ..+.+++|||++.+.   
T Consensus       119 ~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G-~i~~~g~~~dgpLl~A~-~~GgvLiLDEId~a~---  193 (383)
T PHA02244        119 NIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKG-FIDANGKFHETPFYEAF-KKGGLFFIDEIDASI---  193 (383)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcc-cccccccccchHHHHHh-hcCCEEEEeCcCcCC---
Confidence            34699999999999999999999999999988742    1111 11111111111122222 345699999998762   


Q ss_pred             CCCCCCCcchhHHHHHHHHHHhcC---------CCCCCCeEEEEecCCC-----------cccchhccCCCCccceeecC
Q 007255          400 GGSSSTSITVGERLLSTLLTEMDG---------LEQAKGILVLAATNRP-----------HAIDAALMRPGRFDLVLYVP  459 (611)
Q Consensus       400 ~~~~~~~~~~~~~~~~~ll~~l~~---------~~~~~~~~vI~~tn~~-----------~~ld~al~r~gRf~~~i~~~  459 (611)
                                 ......|...++.         .....++.+|+|+|.+           ..+++|++.  ||- .|+|+
T Consensus       194 -----------p~vq~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~AllD--RFv-~I~~d  259 (383)
T PHA02244        194 -----------PEALIIINSAIANKFFDFADERVTAHEDFRVISAGNTLGKGADHIYVARNKIDGATLD--RFA-PIEFD  259 (383)
T ss_pred             -----------HHHHHHHHHHhccCeEEecCcEEecCCCEEEEEeeCCCccCcccccCCCcccCHHHHh--hcE-EeeCC
Confidence                       2334444444431         1234678999999974           467899998  997 79999


Q ss_pred             CCCHH
Q 007255          460 PPDLE  464 (611)
Q Consensus       460 ~p~~~  464 (611)
                      .|+..
T Consensus       260 yp~~~  264 (383)
T PHA02244        260 YDEKI  264 (383)
T ss_pred             CCcHH
Confidence            99843

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=99.28  E-value=1.6e-12  Score=120.88  Aligned_cols=144  Identities=26%  Similarity=0.391  Sum_probs=68.6

Q ss_pred             cccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC----------cEEeecc-
Q 007255          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA----------SFFSLSG-  357 (611)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~----------~~~~~~~-  357 (611)
                      |++|.||+.+|+.+.-+..            |   .+++|++||||||||++|+++...+.-          .+.++.. 
T Consensus         2 f~dI~GQe~aKrAL~iAAa------------G---~h~lLl~GppGtGKTmlA~~l~~lLP~l~~~e~le~~~i~s~~~~   66 (206)
T PF01078_consen    2 FSDIVGQEEAKRALEIAAA------------G---GHHLLLIGPPGTGKTMLARRLPSLLPPLTEEEALEVSKIYSVAGL   66 (206)
T ss_dssp             TCCSSSTHHHHHHHHHHHH------------C---C--EEEES-CCCTHHHHHHHHHHCS--CCEECCESS--S-TT---
T ss_pred             hhhhcCcHHHHHHHHHHHc------------C---CCCeEEECCCCCCHHHHHHHHHHhCCCCchHHHhhhccccccccC
Confidence            7899999999999988876            3   368999999999999999999977610          0000000 


Q ss_pred             ---hhhcc--ccc--cchHHHHHHHHHH--------HHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhc
Q 007255          358 ---AELYS--MYV--GESEALLRNTFQR--------ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (611)
Q Consensus       358 ---~~~~~--~~~--g~~~~~~~~~~~~--------a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~  422 (611)
                         ..+..  .|.  ..+. ....++.-        ....+..|||+||+..+              .+.++..|+..|+
T Consensus        67 ~~~~~~~~~~Pfr~phhs~-s~~~liGgg~~~~PGeislAh~GVLflDE~~ef--------------~~~vld~Lr~ple  131 (206)
T PF01078_consen   67 GPDEGLIRQRPFRAPHHSA-SEAALIGGGRPPRPGEISLAHRGVLFLDELNEF--------------DRSVLDALRQPLE  131 (206)
T ss_dssp             S---EEEE---EEEE-TT---HHHHHEEGGGEEE-CGGGGTTSEEEECETTTS---------------HHHHHHHHHHHH
T ss_pred             CCCCceecCCCcccCCCCc-CHHHHhCCCcCCCcCHHHHhcCCEEEechhhhc--------------CHHHHHHHHHHHH
Confidence               00000  000  0000 01111110        11223459999999765              4678899988886


Q ss_pred             CC-----------CCCCCeEEEEecCC-----------------------CcccchhccCCCCccceeecCCCCHH
Q 007255          423 GL-----------EQAKGILVLAATNR-----------------------PHAIDAALMRPGRFDLVLYVPPPDLE  464 (611)
Q Consensus       423 ~~-----------~~~~~~~vI~~tn~-----------------------~~~ld~al~r~gRf~~~i~~~~p~~~  464 (611)
                      .-           ..+.++++|+|+|.                       ...+..+++.  |||..+.++..+++
T Consensus       132 ~g~v~i~R~~~~~~~Pa~f~lv~a~NPcpCG~~~~~~~~C~Cs~~~~~~Y~~rlsgpllD--RiDi~v~~~~~~~~  205 (206)
T PF01078_consen  132 DGEVTISRAGGSVTYPARFLLVAAMNPCPCGYYGDPDNRCRCSPRQIRRYQSRLSGPLLD--RIDIHVEVPRVSYE  205 (206)
T ss_dssp             HSBEEEEETTEEEEEB--EEEEEEE-S-------------------------------------------------
T ss_pred             CCeEEEEECCceEEEecccEEEEEeccccccccccccccccccccccccccccccccccc--cccccccccccccC
Confidence            32           22346899999883                       1136667776  88888888776654

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PRK05642 DNA replication initiation factor; Validated

Probab=99.28  E-value=9.3e-11  Score=114.40  Aligned_cols=159  Identities=17%  Similarity=0.238  Sum_probs=102.9

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALC  129 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~  129 (611)
                      .++++|+||+|||||+|++++++++   +..+++++..++....        ..+.+...      +..+|+|||++.+.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~~--------~~~~~~~~------~~d~LiiDDi~~~~  110 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDRG--------PELLDNLE------QYELVCLDDLDVIA  110 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhhh--------HHHHHhhh------hCCEEEEechhhhc
Confidence            3789999999999999999998765   5667777776654321        11222221      12489999999775


Q ss_pred             CCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc---ccHHhhccCCc--ceEEEccCCCHHHHHHHHH
Q 007255          130 PRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA---IDPALRRSGRF--DAEVEVTVPTAEERFEILK  204 (611)
Q Consensus       130 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~---l~~~l~~~~Rf--~~~i~~~~p~~~~r~~Il~  204 (611)
                      ...        .+...|+.+++......    ..++++++..+..   ..|++++  ||  ...+.+.+|+.+++..+++
T Consensus       111 ~~~--------~~~~~Lf~l~n~~~~~g----~~ilits~~~p~~l~~~~~~L~S--Rl~~gl~~~l~~~~~e~~~~il~  176 (234)
T PRK05642        111 GKA--------DWEEALFHLFNRLRDSG----RRLLLAASKSPRELPIKLPDLKS--RLTLALVFQMRGLSDEDKLRALQ  176 (234)
T ss_pred             CCh--------HHHHHHHHHHHHHHhcC----CEEEEeCCCCHHHcCccCccHHH--HHhcCeeeecCCCCHHHHHHHHH
Confidence            432        33455666665533221    3466666665543   3688998  77  4678899999999999999


Q ss_pred             HhhcCCCCCC-cccHHHHHHhccCCccccHHHHHHHH
Q 007255          205 LYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       205 ~~~~~~~~~~-~~~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      ..+....+.- +.-++.++....+ +.+.+..+++..
T Consensus       177 ~ka~~~~~~l~~ev~~~L~~~~~~-d~r~l~~~l~~l  212 (234)
T PRK05642        177 LRASRRGLHLTDEVGHFILTRGTR-SMSALFDLLERL  212 (234)
T ss_pred             HHHHHcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH
Confidence            6665544432 2346666766553 345555555544

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.26  E-value=3.3e-11  Score=116.25  Aligned_cols=135  Identities=18%  Similarity=0.309  Sum_probs=95.9

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHh-cCCC-CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc-ccccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQK-LGLK-WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH-KAHVG   95 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~-~g~~-~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~-~~~~~   95 (611)
                      +-++|++.+|+.|-.++.+.+.+-..... -... ...||||.||+|||||.+|+.+|+.++.+|..-++.++. ..|.|
T Consensus        61 ~YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEAGYVG  140 (408)
T COG1219          61 EYVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVG  140 (408)
T ss_pred             hheecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhccccc
Confidence            34799999999998777654332211111 0111 226899999999999999999999999999999998876 45677


Q ss_pred             chHHH-HHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC----chhhHHHHHHHHHHHhcC
Q 007255           96 ESEKA-LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSN  153 (611)
Q Consensus        96 ~~~~~-l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~----~~~~~~~~~~ll~~l~~~  153 (611)
                      +-..+ +.+++..+.-.....+.+|++|||||.+....++.    .-....+++.|+.++++.
T Consensus       141 EDVENillkLlqaadydV~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGT  203 (408)
T COG1219         141 EDVENILLKLLQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGT  203 (408)
T ss_pred             hhHHHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCc
Confidence            66554 44555444433344567899999999999876432    223457899999999873

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.26  E-value=1.6e-10  Score=117.62  Aligned_cols=156  Identities=17%  Similarity=0.179  Sum_probs=107.4

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCcE-------------------------Eeecchhhc---------------
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASF-------------------------FSLSGAELY---------------  361 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~-------------------------~~~~~~~~~---------------  361 (611)
                      +.++++||+||+|+||+++|+++|..+.|..                         ..+.+....               
T Consensus        19 rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~~~~~~~~~~~~~~   98 (342)
T PRK06964         19 RLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAEAPGAADEAKEADA   98 (342)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccccccccccccchh
Confidence            6678999999999999999999999986632                         111111000               


Q ss_pred             ---cc----c-ccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCC
Q 007255          362 ---SM----Y-VGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKG  429 (611)
Q Consensus       362 ---~~----~-~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  429 (611)
                         ++    . ..-.-..++.+.+.+..    ..-.|++||++|.+              +....|.||+.||  +++++
T Consensus        99 ~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m--------------~~~AaNaLLKtLE--EPp~~  162 (342)
T PRK06964         99 DEGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGARVVVLYPAEAL--------------NVAAANALLKTLE--EPPPG  162 (342)
T ss_pred             hcccccccccccccCHHHHHHHHHHhccCCccCCceEEEEechhhc--------------CHHHHHHHHHHhc--CCCcC
Confidence               00    0 00112345555544332    22349999999877              4667899999999  79999


Q ss_pred             eEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHH
Q 007255          430 ILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLC  504 (611)
Q Consensus       430 ~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~  504 (611)
                      ++||++|++|+.+.|.+++  |+. .+.|++|+.++..+.+...  +  ..   +...++..+.| ++.....++
T Consensus       163 t~fiL~t~~~~~LLpTI~S--Rcq-~i~~~~~~~~~~~~~L~~~--~--~~---~~~~~l~~~~G-sp~~Al~~~  226 (342)
T PRK06964        163 TVFLLVSARIDRLLPTILS--RCR-QFPMTVPAPEAAAAWLAAQ--G--VA---DADALLAEAGG-APLAALALA  226 (342)
T ss_pred             cEEEEEECChhhCcHHHHh--cCE-EEEecCCCHHHHHHHHHHc--C--CC---hHHHHHHHcCC-CHHHHHHHH
Confidence            9999999999999999998  996 8999999999999888743  1  11   12345566666 444443333

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.25  E-value=5.7e-10  Score=109.41  Aligned_cols=126  Identities=26%  Similarity=0.313  Sum_probs=85.9

Q ss_pred             CeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC------------cccccHHhhccCC
Q 007255          117 PSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR------------VDAIDPALRRSGR  184 (611)
Q Consensus       117 ~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~------------~~~l~~~l~~~~R  184 (611)
                      |+||||||+|.|          +.+..+.|...|+..-      .++ +|.+||+            |+.++..|+.  |
T Consensus       292 pGVLFIDEvHmL----------DIE~FsFlnrAlEse~------aPI-ii~AtNRG~~kiRGTd~~sPhGIP~DlLD--R  352 (450)
T COG1224         292 PGVLFIDEVHML----------DIECFSFLNRALESEL------API-IILATNRGMTKIRGTDIESPHGIPLDLLD--R  352 (450)
T ss_pred             cceEEEechhhh----------hHHHHHHHHHHhhccc------CcE-EEEEcCCceeeecccCCcCCCCCCHhhhh--h
Confidence            779999999876          2345566666666522      134 4455554            4578889988  8


Q ss_pred             cceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHH
Q 007255          185 FDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTME  263 (611)
Q Consensus       185 f~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~e  263 (611)
                      . ..|...+++.++..+|++...+...+..+ .-++.++.....-+-+-.-+|+.-|...+.++...        .+..+
T Consensus       353 l-lII~t~py~~~EireIi~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~--------~V~~~  423 (450)
T COG1224         353 L-LIISTRPYSREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSK--------RVEVE  423 (450)
T ss_pred             e-eEEecCCCCHHHHHHHHHHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCC--------eeehh
Confidence            7 47899999999999999998877665533 24777777776666666677777777777665432        24445


Q ss_pred             HHHHHHh
Q 007255          264 DWRHARS  270 (611)
Q Consensus       264 d~~~a~~  270 (611)
                      |...+..
T Consensus       424 dVe~a~~  430 (450)
T COG1224         424 DVERAKE  430 (450)
T ss_pred             HHHHHHH
Confidence            5555444

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.25  E-value=7.7e-11  Score=114.53  Aligned_cols=183  Identities=25%  Similarity=0.379  Sum_probs=125.4

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHHhcCC-CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc-cccc--
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGL-KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-AHVG--   95 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~-~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~-~~~~--   95 (611)
                      -|+|++++|+.+.-++.+-+.+.+.-.++.- -.|+|||++||+|+|||.+||.+|+..+.+|+.|-+..+.. .|.|  
T Consensus        16 yIIGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVEATKfTEVGYVGrD   95 (444)
T COG1220          16 YIIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEVGYVGRD   95 (444)
T ss_pred             HhcCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCeEEEEeeeeeeccccccc
Confidence            4899999999998888775554444444332 26899999999999999999999999999998887653210 0000  


Q ss_pred             --------------------------------------------------------------------------------
Q 007255           96 --------------------------------------------------------------------------------   95 (611)
Q Consensus        96 --------------------------------------------------------------------------------   95 (611)
                                                                                                      
T Consensus        96 VesivRDLve~av~lvke~~~~~vk~~ae~~aeeRild~Lvp~~~~~~g~~~~~~~~~~~r~~~rkkLr~GeLdd~eIei  175 (444)
T COG1220          96 VESIIRDLVEIAVKLVREEKIEKVKDKAEELAEERILDALVPPAKNFWGQSENKQESSATREKFRKKLREGELDDKEIEI  175 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccccCcCcccccchHHHHHHHHHHHcCCCCccEEEE
Confidence                                                                                            


Q ss_pred             -------------------chHHHHHHHHHHHHhhh-----------------------------------hcCCCeEEE
Q 007255           96 -------------------ESEKALREAFSQASSHA-----------------------------------LSGKPSVVF  121 (611)
Q Consensus        96 -------------------~~~~~l~~~f~~~~~~~-----------------------------------~~~~~~il~  121 (611)
                                         +....+.++|.......                                   ...+.+|+|
T Consensus       176 ev~~~~~~~~~i~~~pgme~~~~~l~~m~~~~~~~kkkkrk~~Vk~A~~~L~~eea~KLid~e~i~~eAi~~aE~~GIvF  255 (444)
T COG1220         176 EVADKGPPGFEIMGPPGMEEMTNNLQDMFGNLGGKKKKKRKLKVKEAKKLLIEEEADKLIDQEEIKQEAIDAAEQNGIVF  255 (444)
T ss_pred             EEeccCCCccccCCCCcHHHHHHHHHHHHHHhcCCCcceeeeeHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHhcCeEE
Confidence                               00011222222211100                                   011345999


Q ss_pred             EccccccCCCCCCCc-h-hhHHHHHHHHHHHhcCCCC----CCCCCcEEEEEee----cCcccccHHhhccCCcceEEEc
Q 007255          122 IDEIDALCPRRDHRR-E-QDVRIASQLFTLMDSNKPS----KTSVPHVVVVAST----NRVDAIDPALRRSGRFDAEVEV  191 (611)
Q Consensus       122 IDeid~l~~~~~~~~-~-~~~~~~~~ll~~l~~~~~~----~~~~~~v~ii~tt----n~~~~l~~~l~~~~Rf~~~i~~  191 (611)
                      |||||.++...+.++ + ....++..|+-++++..-.    .....+++||++-    ..|++|-|.|.-  ||...+++
T Consensus       256 IDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIasGAFh~sKPSDLiPELQG--RfPIRVEL  333 (444)
T COG1220         256 IDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIASGAFHVAKPSDLIPELQG--RFPIRVEL  333 (444)
T ss_pred             EehhhHHHhcCCCCCCCcchhhhcccccccccCceeeccccccccceEEEEecCceecCChhhcChhhcC--CCceEEEc
Confidence            999999998775332 2 3446888999888874322    1223578899874    457888899965  99999999


Q ss_pred             cCCCHHHHHHHHH
Q 007255          192 TVPTAEERFEILK  204 (611)
Q Consensus       192 ~~p~~~~r~~Il~  204 (611)
                      ...+.++...|+.
T Consensus       334 ~~Lt~~Df~rILt  346 (444)
T COG1220         334 DALTKEDFERILT  346 (444)
T ss_pred             ccCCHHHHHHHHc
Confidence            9999999999884

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.25  E-value=1.9e-11  Score=122.13  Aligned_cols=137  Identities=16%  Similarity=0.183  Sum_probs=96.7

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc--cccchHHH----------HHHHHHHHHhcCCcEEEEc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM--YVGESEAL----------LRNTFQRARLAAPSIIFFD  390 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~--~~g~~~~~----------~~~~~~~a~~~~p~il~iD  390 (611)
                      ..+++||.||||||||++|+.+|..++.+++.++.......  ..|.....          ....+-.|. ..+.++++|
T Consensus        63 ~~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~-~~g~illlD  141 (327)
T TIGR01650        63 YDRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWAL-QHNVALCFD  141 (327)
T ss_pred             cCCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHH-hCCeEEEec
Confidence            34679999999999999999999999999998877554443  33321100          111222232 356789999


Q ss_pred             ccccccccCCCCCCCCcchhHHHHHHHHHHhcC------------CCCCCCeEEEEecCCCc------------ccchhc
Q 007255          391 EADVVGAKRGGSSSTSITVGERLLSTLLTEMDG------------LEQAKGILVLAATNRPH------------AIDAAL  446 (611)
Q Consensus       391 eid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~------------~~~~~~~~vI~~tn~~~------------~ld~al  446 (611)
                      |+|..-              .+..+.|...||.            +.+...+.||+|+|..+            .++.|+
T Consensus       142 Ein~a~--------------p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~~l~~A~  207 (327)
T TIGR01650       142 EYDAGR--------------PDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGDTTGLYHGTQQINQAQ  207 (327)
T ss_pred             hhhccC--------------HHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCCCCcceeeeecCCHHH
Confidence            999762              3344555445441            12445788999999754            368899


Q ss_pred             cCCCCccceeecCCCCHHHHHHHHHHHhcC
Q 007255          447 MRPGRFDLVLYVPPPDLEARHEILRVHTRN  476 (611)
Q Consensus       447 ~r~gRf~~~i~~~~p~~~~r~~il~~~~~~  476 (611)
                      +.  ||-.++.++.|+.++-.+|+.....+
T Consensus       208 lD--RF~i~~~~~Yp~~e~E~~Il~~~~~~  235 (327)
T TIGR01650       208 MD--RWSIVTTLNYLEHDNEAAIVLAKAKG  235 (327)
T ss_pred             Hh--heeeEeeCCCCCHHHHHHHHHhhccC
Confidence            98  99888899999999999999866543

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=99.24  E-value=4.1e-11  Score=109.81  Aligned_cols=133  Identities=26%  Similarity=0.338  Sum_probs=92.3

Q ss_pred             chhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc----------------------
Q 007255          294 GLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS----------------------  351 (611)
Q Consensus       294 g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~----------------------  351 (611)
                      |++.+.+.|...+..            .+.++++||+||+|+||+++|.++|..+.+.                      
T Consensus         1 gq~~~~~~L~~~~~~------------~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~   68 (162)
T PF13177_consen    1 GQEEIIELLKNLIKS------------GRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHP   68 (162)
T ss_dssp             S-HHHHHHHHHHHHC------------TC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CT
T ss_pred             CcHHHHHHHHHHHHc------------CCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCc
Confidence            788888888888873            3567889999999999999999999988432                      


Q ss_pred             -EEeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC
Q 007255          352 -FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ  426 (611)
Q Consensus       352 -~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  426 (611)
                       ++.+++.+-..   .-....++.+...+..    ....|++|||+|.+              +....++||+.|+  ++
T Consensus        69 d~~~~~~~~~~~---~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l--------------~~~a~NaLLK~LE--ep  129 (162)
T PF13177_consen   69 DFIIIKPDKKKK---SIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKL--------------TEEAQNALLKTLE--EP  129 (162)
T ss_dssp             TEEEEETTTSSS---SBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS---------------HHHHHHHHHHHH--ST
T ss_pred             ceEEEecccccc---hhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhh--------------hHHHHHHHHHHhc--CC
Confidence             22222211100   1123445555555432    23459999999987              4678999999999  78


Q ss_pred             CCCeEEEEecCCCcccchhccCCCCccceeecCC
Q 007255          427 AKGILVLAATNRPHAIDAALMRPGRFDLVLYVPP  460 (611)
Q Consensus       427 ~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~  460 (611)
                      ++++.+|++|+.++.+-+.+++  |+. .+.|++
T Consensus       130 p~~~~fiL~t~~~~~il~TI~S--Rc~-~i~~~~  160 (162)
T PF13177_consen  130 PENTYFILITNNPSKILPTIRS--RCQ-VIRFRP  160 (162)
T ss_dssp             TTTEEEEEEES-GGGS-HHHHT--TSE-EEEE--
T ss_pred             CCCEEEEEEECChHHChHHHHh--hce-EEecCC
Confidence            8999999999999999999998  887 666654

...

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.24  E-value=6.5e-11  Score=121.97  Aligned_cols=159  Identities=25%  Similarity=0.321  Sum_probs=105.0

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc--ccccch
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK--AHVGES   97 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~--~~~~~~   97 (611)
                      .++|.++++..+..++.               ...++||.||||||||++++.+|+.++.+++.+++.....  ...|..
T Consensus        25 ~~~g~~~~~~~~l~a~~---------------~~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~   89 (329)
T COG0714          25 VVVGDEEVIELALLALL---------------AGGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTY   89 (329)
T ss_pred             eeeccHHHHHHHHHHHH---------------cCCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCch
Confidence            36777777776666553               3479999999999999999999999999999998874321  112211


Q ss_pred             HHHHH----HHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCC-----CC-CCCCCcEEEEE
Q 007255           98 EKALR----EAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK-----PS-KTSVPHVVVVA  167 (611)
Q Consensus        98 ~~~l~----~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~-----~~-~~~~~~v~ii~  167 (611)
                      .-...    ..|............+|+++|||+...+          .+++.|+..|++..     .. ...+..+++|+
T Consensus        90 ~~~~~~~~~~~~~~~~gpl~~~~~~ill~DEInra~p----------~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~via  159 (329)
T COG0714          90 AYAALLLEPGEFRFVPGPLFAAVRVILLLDEINRAPP----------EVQNALLEALEERQVTVPGLTTIRLPPPFIVIA  159 (329)
T ss_pred             hHhhhhccCCeEEEecCCcccccceEEEEeccccCCH----------HHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEE
Confidence            11110    0000000000000013999999998755          77899999998721     12 23345689999


Q ss_pred             eecC-----cccccHHhhccCCcceEEEccCCCHH-HHHHHHHH
Q 007255          168 STNR-----VDAIDPALRRSGRFDAEVEVTVPTAE-ERFEILKL  205 (611)
Q Consensus       168 ttn~-----~~~l~~~l~~~~Rf~~~i~~~~p~~~-~r~~Il~~  205 (611)
                      |+|+     ...+++++++  ||...++++.|+.+ +...++..
T Consensus       160 T~Np~e~~g~~~l~eA~ld--Rf~~~~~v~yp~~~~e~~~i~~~  201 (329)
T COG0714         160 TQNPGEYEGTYPLPEALLD--RFLLRIYVDYPDSEEEERIILAR  201 (329)
T ss_pred             ccCccccCCCcCCCHHHHh--hEEEEEecCCCCchHHHHHHHHh
Confidence            9994     4578999998  99888999999444 44444443

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.24  E-value=1.7e-10  Score=117.54  Aligned_cols=155  Identities=21%  Similarity=0.278  Sum_probs=101.7

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-------CCcEE-------
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-------EASFF-------  353 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-------~~~~~-------  353 (611)
                      .|..|+|++++|..|.-.+..             +...+++|.|+||+|||+++++++..+       ++++-       
T Consensus         2 pf~~ivgq~~~~~al~~~~~~-------------~~~g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~   68 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVID-------------PKIGGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPE   68 (337)
T ss_pred             CccccccHHHHHHHHHHHhcC-------------CCCCeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCcc
Confidence            478899999999988766553             224579999999999999999999877       33221       


Q ss_pred             --------------------------eecchhhccccccchHHHHHHH-------HH--HHHhcCCcEEEEccccccccc
Q 007255          354 --------------------------SLSGAELYSMYVGESEALLRNT-------FQ--RARLAAPSIIFFDEADVVGAK  398 (611)
Q Consensus       354 --------------------------~~~~~~~~~~~~g~~~~~~~~~-------~~--~a~~~~p~il~iDeid~l~~~  398 (611)
                                                .+......+...|...  +...       |.  .....+..+||+||++.+   
T Consensus        69 ~~~~~~r~~~~~~~~~~~~~~~~~~~~lP~~~t~d~l~G~~d--~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L---  143 (337)
T TIGR02030        69 MMCEEVRIRVDSQEPLSIIKKPVPVVDLPLGATEDRVCGTLD--IERALTEGVKAFEPGLLARANRGILYIDEVNLL---  143 (337)
T ss_pred             ccChHHhhhhhcccccccccCCCCcCCCCCCCcccceecchh--HhhHhhcCCEEeecCcceeccCCEEEecChHhC---
Confidence                                      0000000001222210  1110       00  001122359999999987   


Q ss_pred             CCCCCCCCcchhHHHHHHHHHHhcCCC-----------CCCCeEEEEecCCCc-ccchhccCCCCccceeecCCCCH-HH
Q 007255          399 RGGSSSTSITVGERLLSTLLTEMDGLE-----------QAKGILVLAATNRPH-AIDAALMRPGRFDLVLYVPPPDL-EA  465 (611)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~~~vI~~tn~~~-~ld~al~r~gRf~~~i~~~~p~~-~~  465 (611)
                                 ....++.|+..|+.-.           ...++++|+++|..+ .+.++++.  ||..++.++.|+. ++
T Consensus       144 -----------~~~~Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~eg~l~~~Lld--Rf~l~i~l~~p~~~ee  210 (337)
T TIGR02030       144 -----------EDHLVDVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGLHAEIRTVRDVEL  210 (337)
T ss_pred             -----------CHHHHHHHHHHHHhCCeEEEECCEEEEcCCCEEEEeccccccCCCCHHHHh--hcceEEECCCCCCHHH
Confidence                       2457778888775311           124678888887555 68899999  9999999998876 88


Q ss_pred             HHHHHHHH
Q 007255          466 RHEILRVH  473 (611)
Q Consensus       466 r~~il~~~  473 (611)
                      |.+|++..
T Consensus       211 r~eIL~~~  218 (337)
T TIGR02030       211 RVEIVERR  218 (337)
T ss_pred             HHHHHHhh
Confidence            99999864

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=99.24  E-value=1.8e-10  Score=118.94  Aligned_cols=154  Identities=27%  Similarity=0.382  Sum_probs=110.5

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC--------------------
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG--------------------   78 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~--------------------   78 (611)
                      ++++|.+.+...+..+....          + +.+..+||+||||+|||++|.++|+.+.                    
T Consensus         1 ~~~~~~~~~~~~l~~~~~~~----------~-~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~   69 (325)
T COG0470           1 DELVPWQEAVKRLLVQALES----------G-RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIP   69 (325)
T ss_pred             CCcccchhHHHHHHHHHHhc----------C-CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHh
Confidence            35788888888888876431          1 2334599999999999999999999987                    


Q ss_pred             ----CcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCC
Q 007255           79 ----AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK  154 (611)
Q Consensus        79 ----~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~  154 (611)
                          ..++.+++++.....  .....++++-+........+..-|++|||+|.|..          ..++.++..++...
T Consensus        70 ~~~~~d~lel~~s~~~~~~--i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~----------~A~nallk~lEep~  137 (325)
T COG0470          70 AGNHPDFLELNPSDLRKID--IIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTE----------DAANALLKTLEEPP  137 (325)
T ss_pred             hcCCCceEEecccccCCCc--chHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhH----------HHHHHHHHHhccCC
Confidence                466777776654321  22344555444444333334567999999998855          66888999998733


Q ss_pred             CCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHH
Q 007255          155 PSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILK  204 (611)
Q Consensus       155 ~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~  204 (611)
                            .+..+|.+||.++.+-+.+++  |+. .+.|++|+.........
T Consensus       138 ------~~~~~il~~n~~~~il~tI~S--Rc~-~i~f~~~~~~~~i~~~e  178 (325)
T COG0470         138 ------KNTRFILITNDPSKILPTIRS--RCQ-RIRFKPPSRLEAIAWLE  178 (325)
T ss_pred             ------CCeEEEEEcCChhhccchhhh--cce-eeecCCchHHHHHHHhh
Confidence                  357899999999999999998  884 78898866555544443

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.23  E-value=4e-10  Score=120.01  Aligned_cols=174  Identities=16%  Similarity=0.231  Sum_probs=109.3

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      .++++|+|++|+|||+|++++++++     +..++++++.++............ ..+......  .....+|+|||++.
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l~~~~-~~~~~~~~~--~~~~dvLiIDDiq~  217 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDILQKTH-KEIEQFKNE--ICQNDVLIIDDVQF  217 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHHhh-hHHHHHHHH--hccCCEEEEecccc
Confidence            3689999999999999999999865     457778887776544332211100 111111111  12356999999998


Q ss_pred             cCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc---cccHHhhccCCc--ceEEEccCCCHHHHHHH
Q 007255          128 LCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRF--DAEVEVTVPTAEERFEI  202 (611)
Q Consensus       128 l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~---~l~~~l~~~~Rf--~~~i~~~~p~~~~r~~I  202 (611)
                      +....        ..+..++.+++......    ..+|+++..+|.   .+++++.+  ||  ...+.+.+|+.+++.+|
T Consensus       218 l~~k~--------~~~e~lf~l~N~~~~~~----k~iIltsd~~P~~l~~l~~rL~S--R~~~Gl~~~L~~pd~e~r~~i  283 (450)
T PRK14087        218 LSYKE--------KTNEIFFTIFNNFIEND----KQLFFSSDKSPELLNGFDNRLIT--RFNMGLSIAIQKLDNKTATAI  283 (450)
T ss_pred             ccCCH--------HHHHHHHHHHHHHHHcC----CcEEEECCCCHHHHhhccHHHHH--HHhCCceeccCCcCHHHHHHH
Confidence            75422        33445555554432221    123444444444   45799998  66  46789999999999999


Q ss_pred             HHHhhcCCCC---CCcccHHHHHHhccCCccccHHHHHHHHHHHH
Q 007255          203 LKLYTKKVPL---DANVDLEAIATSCNGYVGADLEALCREATMSA  244 (611)
Q Consensus       203 l~~~~~~~~~---~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a  244 (611)
                      ++..+...+.   -.+..+..++..+.| ..|.+..++......+
T Consensus       284 L~~~~~~~gl~~~l~~evl~~Ia~~~~g-d~R~L~gaL~~l~~~a  327 (450)
T PRK14087        284 IKKEIKNQNIKQEVTEEAINFISNYYSD-DVRKIKGSVSRLNFWS  327 (450)
T ss_pred             HHHHHHhcCCCCCCCHHHHHHHHHccCC-CHHHHHHHHHHHHHHH
Confidence            9998876443   123346777777665 4666777777665443

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=99.23  E-value=1.8e-10  Score=116.30  Aligned_cols=172  Identities=18%  Similarity=0.172  Sum_probs=115.8

Q ss_pred             hHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEE-------------eecchhhcc
Q 007255          296 RDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF-------------SLSGAELYS  362 (611)
Q Consensus       296 ~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~-------------~~~~~~~~~  362 (611)
                      +.+.+.+...+..            .+.++++||+||+|+||+++|.++|..+.|.-.             .-+-+|+.-
T Consensus        10 ~~~~~~l~~~~~~------------~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~   77 (319)
T PRK08769         10 QRAYDQTVAALDA------------GRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQL   77 (319)
T ss_pred             HHHHHHHHHHHHc------------CCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEE
Confidence            4556666666552            356788999999999999999999988844210             000111110


Q ss_pred             c-----ccc------chHHHHHHHHHHHHhc----CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCC
Q 007255          363 M-----YVG------ESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA  427 (611)
Q Consensus       363 ~-----~~g------~~~~~~~~~~~~a~~~----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  427 (611)
                      -     ..|      -.-..++.+.+.+...    .-.|++||++|.+              +....|.||+.|+  +++
T Consensus        78 i~~~p~~~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m--------------~~~AaNaLLKtLE--EPp  141 (319)
T PRK08769         78 VSFIPNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAI--------------NRAACNALLKTLE--EPS  141 (319)
T ss_pred             EecCCCcccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhh--------------CHHHHHHHHHHhh--CCC
Confidence            0     011      1233455555544332    2249999999977              3567899999999  788


Q ss_pred             CCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHH
Q 007255          428 KGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLC  504 (611)
Q Consensus       428 ~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~  504 (611)
                      ++++||.+|+.++.+-|.+++  |+. .+.|+.|+.++..+.+...    .. +..+...++..+.| ++......+
T Consensus       142 ~~~~fiL~~~~~~~lLpTIrS--RCq-~i~~~~~~~~~~~~~L~~~----~~-~~~~a~~~~~l~~G-~p~~A~~~~  209 (319)
T PRK08769        142 PGRYLWLISAQPARLPATIRS--RCQ-RLEFKLPPAHEALAWLLAQ----GV-SERAAQEALDAARG-HPGLAAQWL  209 (319)
T ss_pred             CCCeEEEEECChhhCchHHHh--hhe-EeeCCCcCHHHHHHHHHHc----CC-ChHHHHHHHHHcCC-CHHHHHHHh
Confidence            899999999999999999998  998 8889999998888777631    11 22334466777777 444333433

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.22  E-value=3.4e-10  Score=115.38  Aligned_cols=156  Identities=20%  Similarity=0.287  Sum_probs=110.9

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCc------------------------EEEEcccccccccccchHHHHHHHHH
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAH------------------------LTVISPHSVHKAHVGESEKALREAFS  106 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~------------------------~~~v~~~~~~~~~~~~~~~~l~~~f~  106 (611)
                      +.+..+||+||+|+|||++|+.+|+.+.+.                        +..+.+..-   ...-....++.+.+
T Consensus        20 r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~---~~~i~id~iR~l~~   96 (328)
T PRK05707         20 RHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEA---DKTIKVDQVRELVS   96 (328)
T ss_pred             CcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCC---CCCCCHHHHHHHHH
Confidence            356789999999999999999999988542                        122211100   01123456677666


Q ss_pred             HHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcc
Q 007255          107 QASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFD  186 (611)
Q Consensus       107 ~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~  186 (611)
                      .+...+..+...|++||++|.|..          ...+.|++.+++      +++++++|.+|+.++.+.|.+++  |+.
T Consensus        97 ~~~~~~~~~~~kv~iI~~a~~m~~----------~aaNaLLK~LEE------Pp~~~~fiL~t~~~~~ll~TI~S--Rc~  158 (328)
T PRK05707         97 FVVQTAQLGGRKVVLIEPAEAMNR----------NAANALLKSLEE------PSGDTVLLLISHQPSRLLPTIKS--RCQ  158 (328)
T ss_pred             HHhhccccCCCeEEEECChhhCCH----------HHHHHHHHHHhC------CCCCeEEEEEECChhhCcHHHHh--hce
Confidence            666555555677999999998854          678999999997      34468888999999999999999  985


Q ss_pred             eEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccc
Q 007255          187 AEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGA  231 (611)
Q Consensus       187 ~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~  231 (611)
                       .+.|++|+.++..+.+......   ..+.....++..++|-.+.
T Consensus       159 -~~~~~~~~~~~~~~~L~~~~~~---~~~~~~~~~l~la~Gsp~~  199 (328)
T PRK05707        159 -QQACPLPSNEESLQWLQQALPE---SDERERIELLTLAGGSPLR  199 (328)
T ss_pred             -eeeCCCcCHHHHHHHHHHhccc---CChHHHHHHHHHcCCCHHH
Confidence             7999999999998888764321   1222345556666665544

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.22  E-value=2.4e-11  Score=112.00  Aligned_cols=120  Identities=19%  Similarity=0.291  Sum_probs=79.1

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCC----cEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGA----HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~----~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      |..++||+||+|||||.+++++|+.+..    +++.++++.+....  .....+..............+..||++||||+
T Consensus         2 p~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~--~~~~~~~~l~~~~~~~v~~~~~gVVllDEidK   79 (171)
T PF07724_consen    2 PKSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGD--DVESSVSKLLGSPPGYVGAEEGGVVLLDEIDK   79 (171)
T ss_dssp             -SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHH--HCSCHCHHHHHHTTCHHHHHHHTEEEEETGGG
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccc--hHHhhhhhhhhcccceeeccchhhhhhHHHhh
Confidence            4468999999999999999999999996    99999999887611  11111222222211111111234999999999


Q ss_pred             cCCCCCCC-chhhHHHHHHHHHHHhcCCCC-----CCCCCcEEEEEeecCcc
Q 007255          128 LCPRRDHR-REQDVRIASQLFTLMDSNKPS-----KTSVPHVVVVASTNRVD  173 (611)
Q Consensus       128 l~~~~~~~-~~~~~~~~~~ll~~l~~~~~~-----~~~~~~v~ii~ttn~~~  173 (611)
                      ..+....+ ......+++.|+..++...-.     .....++++|+|+|--.
T Consensus        80 a~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~~  131 (171)
T PF07724_consen   80 AHPSNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFGA  131 (171)
T ss_dssp             CSHTTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSST
T ss_pred             ccccccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEeccccc
Confidence            98853322 333457889999999874321     12335789999999754

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.21  E-value=3.6e-12  Score=114.22  Aligned_cols=119  Identities=27%  Similarity=0.420  Sum_probs=73.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccc--cccchHHH-HHHHHHHHHhhhhcCCCeEEEEccccccCCC
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA--HVGESEKA-LREAFSQASSHALSGKPSVVFIDEIDALCPR  131 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~--~~~~~~~~-l~~~f~~~~~~~~~~~~~il~IDeid~l~~~  131 (611)
                      +|||+||||||||++++.+|+.++.+++.++++.....  ..|..... -...|....-.....+++|++|||++...+ 
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin~a~~-   79 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEINRAPP-   79 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCGG--H-
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcccCCH-
Confidence            68999999999999999999999999988877643210  00100000 000000000000011478999999987643 


Q ss_pred             CCCCchhhHHHHHHHHHHHhcCCCC-------CCCCC------cEEEEEeecCcc----cccHHhhccCCc
Q 007255          132 RDHRREQDVRIASQLFTLMDSNKPS-------KTSVP------HVVVVASTNRVD----AIDPALRRSGRF  185 (611)
Q Consensus       132 ~~~~~~~~~~~~~~ll~~l~~~~~~-------~~~~~------~v~ii~ttn~~~----~l~~~l~~~~Rf  185 (611)
                               .++..|+.+++.....       .....      ++.+|+|+|+.+    .+++++++  ||
T Consensus        80 ---------~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~l~~al~~--Rf  139 (139)
T PF07728_consen   80 ---------EVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKELSPALLD--RF  139 (139)
T ss_dssp             ---------HHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTTTCHHHHT--T-
T ss_pred             ---------HHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCcCCHHHHh--hC
Confidence                     7788888888763211       00111      389999999988    89999998  87

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=99.21  E-value=2.3e-10  Score=118.58  Aligned_cols=151  Identities=21%  Similarity=0.299  Sum_probs=94.0

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc-------EEEEccc---
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------LTVISPH---   87 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-------~~~v~~~---   87 (611)
                      ++++.+-++..+.+...+.               ...+++|+||||||||++|+.+|..++..       ++.++.+   
T Consensus       174 l~d~~i~e~~le~l~~~L~---------------~~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySY  238 (459)
T PRK11331        174 LNDLFIPETTIETILKRLT---------------IKKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSY  238 (459)
T ss_pred             hhcccCCHHHHHHHHHHHh---------------cCCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccH
Confidence            5677777777777766553               24799999999999999999999988531       2333322   


Q ss_pred             -cccccc-ccch-----HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCC------
Q 007255           88 -SVHKAH-VGES-----EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK------  154 (611)
Q Consensus        88 -~~~~~~-~~~~-----~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~------  154 (611)
                       ++...+ ++..     ...+..+...+...  ..+|.||||||+|.....         .+...++.+++...      
T Consensus       239 eDFI~G~rP~~vgy~~~~G~f~~~~~~A~~~--p~~~~vliIDEINRani~---------kiFGel~~lLE~~~rg~~~~  307 (459)
T PRK11331        239 EDFIQGYRPNGVGFRRKDGIFYNFCQQAKEQ--PEKKYVFIIDEINRANLS---------KVFGEVMMLMEHDKRGENWS  307 (459)
T ss_pred             HHHhcccCCCCCCeEecCchHHHHHHHHHhc--ccCCcEEEEehhhccCHH---------Hhhhhhhhhccccccccccc
Confidence             221111 1100     01223333444322  235799999999865432         33445555555321      


Q ss_pred             ----------CCCCCCCcEEEEEeecCcc----cccHHhhccCCcceEEEccC-CCHH
Q 007255          155 ----------PSKTSVPHVVVVASTNRVD----AIDPALRRSGRFDAEVEVTV-PTAE  197 (611)
Q Consensus       155 ----------~~~~~~~~v~ii~ttn~~~----~l~~~l~~~~Rf~~~i~~~~-p~~~  197 (611)
                                .....+.++.||||+|..+    .+|.+++|  ||. .+++.+ ++..
T Consensus       308 v~l~y~e~d~e~f~iP~Nl~IIgTMNt~Drs~~~lD~AlrR--RF~-fi~i~p~~~~~  362 (459)
T PRK11331        308 VPLTYSENDEERFYVPENVYIIGLMNTADRSLAVVDYALRR--RFS-FIDIEPGFDTP  362 (459)
T ss_pred             eeeeccccccccccCCCCeEEEEecCccccchhhccHHHHh--hhh-eEEecCCCChH
Confidence                      1234567899999999987    79999999  886 456655 3443

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.21  E-value=3e-10  Score=116.60  Aligned_cols=151  Identities=17%  Similarity=0.229  Sum_probs=109.5

Q ss_pred             cccCC-cHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc-----------------
Q 007255           19 EAIGG-NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-----------------   80 (611)
Q Consensus        19 ~~i~G-~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-----------------   80 (611)
                      +.|+| ++.+++.|...+..            -+.+..+||+||+|+||+++++.+|+.+.+.                 
T Consensus         5 ~~i~~~q~~~~~~L~~~~~~------------~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~   72 (329)
T PRK08058          5 EQLTALQPVVVKMLQNSIAK------------NRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRI   72 (329)
T ss_pred             HHHHhhHHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHH
Confidence            66777 88899999888743            2355678999999999999999999987432                 


Q ss_pred             -------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcC
Q 007255           81 -------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN  153 (611)
Q Consensus        81 -------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~  153 (611)
                             +..+...   .  .......++++.+.....+..+...|++|||+|.+..          ..++.|++.+++ 
T Consensus        73 ~~~~hpD~~~i~~~---~--~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~----------~a~NaLLK~LEE-  136 (329)
T PRK08058         73 DSGNHPDVHLVAPD---G--QSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTA----------SAANSLLKFLEE-  136 (329)
T ss_pred             hcCCCCCEEEeccc---c--ccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCH----------HHHHHHHHHhcC-
Confidence                   1111111   0  0112334555555544333344567999999998844          568899999997 


Q ss_pred             CCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHH
Q 007255          154 KPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKL  205 (611)
Q Consensus       154 ~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~  205 (611)
                           ++.++++|.+|+.++.+.|.+++  |+. .++|++|+.++..++++.
T Consensus       137 -----Pp~~~~~Il~t~~~~~ll~TIrS--Rc~-~i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        137 -----PSGGTTAILLTENKHQILPTILS--RCQ-VVEFRPLPPESLIQRLQE  180 (329)
T ss_pred             -----CCCCceEEEEeCChHhCcHHHHh--hce-eeeCCCCCHHHHHHHHHH
Confidence                 33457778888888899999999  874 899999999998887764

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=99.20  E-value=2.7e-10  Score=113.68  Aligned_cols=67  Identities=34%  Similarity=0.506  Sum_probs=47.8

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC--CcEEeecchhhcc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE--ASFFSLSGAELYS  362 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~--~~~~~~~~~~~~~  362 (611)
                      ..+.++||..+++..--.+.. +       +-+.-..+++||.||||||||++|-++|+++|  .||+.++++++++
T Consensus        22 ~~~GlVGQ~~AReAagiiv~m-I-------k~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEiyS   90 (398)
T PF06068_consen   22 IADGLVGQEKAREAAGIIVDM-I-------KEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEIYS   90 (398)
T ss_dssp             EETTEES-HHHHHHHHHHHHH-H-------HTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG-B
T ss_pred             ccccccChHHHHHHHHHHHHH-H-------hcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEcccceeee
Confidence            456899999999987655542 1       11444578999999999999999999999995  7888888877765

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=99.19  E-value=2.7e-10  Score=104.36  Aligned_cols=138  Identities=27%  Similarity=0.393  Sum_probs=95.0

Q ss_pred             CcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc----------------------
Q 007255           23 GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH----------------------   80 (611)
Q Consensus        23 G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~----------------------   80 (611)
                      |++.+++.|.+.+..            -+.|..+||+||+|+||+++|.++|+.+...                      
T Consensus         1 gq~~~~~~L~~~~~~------------~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~   68 (162)
T PF13177_consen    1 GQEEIIELLKNLIKS------------GRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHP   68 (162)
T ss_dssp             S-HHHHHHHHHHHHC------------TC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CT
T ss_pred             CcHHHHHHHHHHHHc------------CCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCc
Confidence            788999999888754            2356789999999999999999999987432                      


Q ss_pred             -EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCC
Q 007255           81 -LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS  159 (611)
Q Consensus        81 -~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  159 (611)
                       ++.++......   .-....++.+..........+..-|++|||+|.|..          ..++.|+..|++      +
T Consensus        69 d~~~~~~~~~~~---~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~~----------~a~NaLLK~LEe------p  129 (162)
T PF13177_consen   69 DFIIIKPDKKKK---SIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLTE----------EAQNALLKTLEE------P  129 (162)
T ss_dssp             TEEEEETTTSSS---SBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS-H----------HHHHHHHHHHHS------T
T ss_pred             ceEEEecccccc---hhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhhH----------HHHHHHHHHhcC------C
Confidence             22222211100   123455666666665555455677999999998854          779999999998      3


Q ss_pred             CCcEEEEEeecCcccccHHhhccCCcceEEEccCC
Q 007255          160 VPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVP  194 (611)
Q Consensus       160 ~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p  194 (611)
                      +.++.+|.+|+.++.+-|.+++  |+. .+.|++.
T Consensus       130 p~~~~fiL~t~~~~~il~TI~S--Rc~-~i~~~~l  161 (162)
T PF13177_consen  130 PENTYFILITNNPSKILPTIRS--RCQ-VIRFRPL  161 (162)
T ss_dssp             TTTEEEEEEES-GGGS-HHHHT--TSE-EEEE---
T ss_pred             CCCEEEEEEECChHHChHHHHh--hce-EEecCCC
Confidence            4478999999999999999999  884 7777764

...

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=99.19  E-value=4.3e-10  Score=113.41  Aligned_cols=167  Identities=13%  Similarity=0.122  Sum_probs=114.6

Q ss_pred             hHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----------------------E
Q 007255          296 RDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----------------------F  352 (611)
Q Consensus       296 ~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----------------------~  352 (611)
                      ....+.+...+.            ..+.++++||+||.|+||+++|+++|..+.|.                       +
T Consensus         9 ~~~~~~l~~~~~------------~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~   76 (319)
T PRK06090          9 VPVWQNWKAGLD------------AGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDL   76 (319)
T ss_pred             HHHHHHHHHHHH------------cCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCE
Confidence            455566666655            23667899999999999999999999988442                       2


Q ss_pred             EeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCC
Q 007255          353 FSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK  428 (611)
Q Consensus       353 ~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  428 (611)
                      +.+.+.. .++.  -....++.+-+.+..    ..-.|++||++|.+              +....|.||+.|+  ++++
T Consensus        77 ~~i~p~~-~~~~--I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m--------------~~~AaNaLLKtLE--EPp~  137 (319)
T PRK06090         77 HVIKPEK-EGKS--ITVEQIRQCNRLAQESSQLNGYRLFVIEPADAM--------------NESASNALLKTLE--EPAP  137 (319)
T ss_pred             EEEecCc-CCCc--CCHHHHHHHHHHHhhCcccCCceEEEecchhhh--------------CHHHHHHHHHHhc--CCCC
Confidence            2222110 0000  122345555444432    22359999999977              3567899999999  7889


Q ss_pred             CeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHH
Q 007255          429 GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLC  504 (611)
Q Consensus       429 ~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~  504 (611)
                      ++++|.+|+.|+.+-|.+++  |+. .+.|+.|+.++..+.+...  +  ..   ....++..+.| ++.....+.
T Consensus       138 ~t~fiL~t~~~~~lLpTI~S--RCq-~~~~~~~~~~~~~~~L~~~--~--~~---~~~~~l~l~~G-~p~~A~~~~  202 (319)
T PRK06090        138 NCLFLLVTHNQKRLLPTIVS--RCQ-QWVVTPPSTAQAMQWLKGQ--G--IT---VPAYALKLNMG-SPLKTLAMM  202 (319)
T ss_pred             CeEEEEEECChhhChHHHHh--cce-eEeCCCCCHHHHHHHHHHc--C--Cc---hHHHHHHHcCC-CHHHHHHHh
Confidence            99999999999999999998  998 8899999999888887632  1  11   12355566666 444444443

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.18  E-value=8.8e-10  Score=122.71  Aligned_cols=163  Identities=22%  Similarity=0.296  Sum_probs=107.5

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC------------------
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG------------------   78 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~------------------   78 (611)
                      .|.+|+|++.++..|.-+...|             ...++||.|++|||||++++++++.+.                  
T Consensus         2 pf~~ivGq~~~~~al~~~av~~-------------~~g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~   68 (633)
T TIGR02442         2 PFTAIVGQEDLKLALLLNAVDP-------------RIGGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPE   68 (633)
T ss_pred             CcchhcChHHHHHHHHHHhhCC-------------CCCeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCcc
Confidence            4689999999998886655432             125799999999999999999999872                  


Q ss_pred             -----------------CcEEEEcccccccccccchHHHHHHHHHHH-----HhhhhcCCCeEEEEccccccCCCCCCCc
Q 007255           79 -----------------AHLTVISPHSVHKAHVGESEKALREAFSQA-----SSHALSGKPSVVFIDEIDALCPRRDHRR  136 (611)
Q Consensus        79 -----------------~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~-----~~~~~~~~~~il~IDeid~l~~~~~~~~  136 (611)
                                       .+|+.+.++.......|...  +...+...     .........+||||||++.+.+      
T Consensus        69 ~~~~~~~~~~~~~~~~~~pfv~~p~~~t~~~l~G~~d--~~~~l~~g~~~~~~G~L~~A~~GiL~lDEi~~l~~------  140 (633)
T TIGR02442        69 EWCEECRRKYRPSEQRPVPFVNLPLGATEDRVVGSLD--IERALREGEKAFQPGLLAEAHRGILYIDEVNLLDD------  140 (633)
T ss_pred             ccChhhhhcccccccCCCCeeeCCCCCcHHHcCCccc--HHHHhhcCCeeecCcceeecCCCeEEeChhhhCCH------
Confidence                             34444444332222222210  11111100     0000122457999999998855      


Q ss_pred             hhhHHHHHHHHHHHhcCC-------CCCCCCCcEEEEEeecCc-ccccHHhhccCCcceEEEccCCC-HHHHHHHHHHh
Q 007255          137 EQDVRIASQLFTLMDSNK-------PSKTSVPHVVVVASTNRV-DAIDPALRRSGRFDAEVEVTVPT-AEERFEILKLY  206 (611)
Q Consensus       137 ~~~~~~~~~ll~~l~~~~-------~~~~~~~~v~ii~ttn~~-~~l~~~l~~~~Rf~~~i~~~~p~-~~~r~~Il~~~  206 (611)
                          ..+..|+..|+...       .....+.++.+|+|+|+. ..+.++|..  ||...+.++.+. .+++.++++..
T Consensus       141 ----~~q~~Ll~~le~g~~~v~r~g~~~~~~~~~~lIat~np~eg~l~~~L~d--R~~l~i~v~~~~~~~~~~~il~~~  213 (633)
T TIGR02442       141 ----HLVDVLLDAAAMGVNRVEREGLSVSHPARFVLIGTMNPEEGDLRPQLLD--RFGLCVDVAAPRDPEERVEIIRRR  213 (633)
T ss_pred             ----HHHHHHHHHHhcCCEEEEECCceeeecCCeEEEEecCCCCCCCCHHHHh--hcceEEEccCCCchHHHHHHHHHH
Confidence                67888999987542       111223568999999975 368899998  999888888774 57777777653

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=99.17  E-value=2.5e-10  Score=118.39  Aligned_cols=140  Identities=17%  Similarity=0.305  Sum_probs=87.6

Q ss_pred             cccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-------EEeecc----
Q 007255          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-------FFSLSG----  357 (611)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-------~~~~~~----  357 (611)
                      ++++.+.+...+.+...+.               ..++++|+||||||||++|+.+|..+...       ++.+++    
T Consensus       174 l~d~~i~e~~le~l~~~L~---------------~~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySY  238 (459)
T PRK11331        174 LNDLFIPETTIETILKRLT---------------IKKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSY  238 (459)
T ss_pred             hhcccCCHHHHHHHHHHHh---------------cCCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccH
Confidence            3455555665555554443               24689999999999999999999988431       233332    


Q ss_pred             hhhccccccc----h--HHHHHHHHHHHHh--cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhc-------
Q 007255          358 AELYSMYVGE----S--EALLRNTFQRARL--AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD-------  422 (611)
Q Consensus       358 ~~~~~~~~g~----~--~~~~~~~~~~a~~--~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~-------  422 (611)
                      .++...+...    .  ...+..++..|+.  ..|.++||||++.--.             .+++..++..|+       
T Consensus       239 eDFI~G~rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani-------------~kiFGel~~lLE~~~rg~~  305 (459)
T PRK11331        239 EDFIQGYRPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANL-------------SKVFGEVMMLMEHDKRGEN  305 (459)
T ss_pred             HHHhcccCCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCH-------------HHhhhhhhhhccccccccc
Confidence            2333222111    0  1233445555654  3578999999986421             223333333333       


Q ss_pred             -------------CCCCCCCeEEEEecCCCc----ccchhccCCCCccceeecC
Q 007255          423 -------------GLEQAKGILVLAATNRPH----AIDAALMRPGRFDLVLYVP  459 (611)
Q Consensus       423 -------------~~~~~~~~~vI~~tn~~~----~ld~al~r~gRf~~~i~~~  459 (611)
                                   .+..+.++.||||+|..+    .+|.|++|  ||. .|.+.
T Consensus       306 ~~v~l~y~e~d~e~f~iP~Nl~IIgTMNt~Drs~~~lD~AlrR--RF~-fi~i~  356 (459)
T PRK11331        306 WSVPLTYSENDEERFYVPENVYIIGLMNTADRSLAVVDYALRR--RFS-FIDIE  356 (459)
T ss_pred             cceeeeccccccccccCCCCeEEEEecCccccchhhccHHHHh--hhh-eEEec
Confidence                         234567899999999988    79999999  997 45554

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.16  E-value=2.4e-10  Score=127.19  Aligned_cols=156  Identities=27%  Similarity=0.372  Sum_probs=103.5

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-------------------
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-------------------  348 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-------------------  348 (611)
                      .|.+|+|++.++..+.-....             +...++||.||+|||||++|++++..+                   
T Consensus         2 pf~~ivGq~~~~~al~~~av~-------------~~~g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~   68 (633)
T TIGR02442         2 PFTAIVGQEDLKLALLLNAVD-------------PRIGGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPE   68 (633)
T ss_pred             CcchhcChHHHHHHHHHHhhC-------------CCCCeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCcc
Confidence            478999999999888766553             122479999999999999999999887                   


Q ss_pred             ----------------CCcEEeecchhhccccccch--HHHHH---HHHH--HHHhcCCcEEEEcccccccccCCCCCCC
Q 007255          349 ----------------EASFFSLSGAELYSMYVGES--EALLR---NTFQ--RARLAAPSIIFFDEADVVGAKRGGSSST  405 (611)
Q Consensus       349 ----------------~~~~~~~~~~~~~~~~~g~~--~~~~~---~~~~--~a~~~~p~il~iDeid~l~~~~~~~~~~  405 (611)
                                      ..+|+.+..+.......|..  +..+.   ..+.  .....+..||||||++.+          
T Consensus        69 ~~~~~~~~~~~~~~~~~~pfv~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~L~~A~~GiL~lDEi~~l----------  138 (633)
T TIGR02442        69 EWCEECRRKYRPSEQRPVPFVNLPLGATEDRVVGSLDIERALREGEKAFQPGLLAEAHRGILYIDEVNLL----------  138 (633)
T ss_pred             ccChhhhhcccccccCCCCeeeCCCCCcHHHcCCcccHHHHhhcCCeeecCcceeecCCCeEEeChhhhC----------
Confidence                            23555554443322233321  11110   0000  000113359999999987          


Q ss_pred             CcchhHHHHHHHHHHhcCC-----------CCCCCeEEEEecCCC-cccchhccCCCCccceeecCCCC-HHHHHHHHHH
Q 007255          406 SITVGERLLSTLLTEMDGL-----------EQAKGILVLAATNRP-HAIDAALMRPGRFDLVLYVPPPD-LEARHEILRV  472 (611)
Q Consensus       406 ~~~~~~~~~~~ll~~l~~~-----------~~~~~~~vI~~tn~~-~~ld~al~r~gRf~~~i~~~~p~-~~~r~~il~~  472 (611)
                          ....++.|+..|+.-           ....++++|+|+|.. ..+.++|+.  ||+.+|.++.|. .+++.++++.
T Consensus       139 ----~~~~q~~Ll~~le~g~~~v~r~g~~~~~~~~~~lIat~np~eg~l~~~L~d--R~~l~i~v~~~~~~~~~~~il~~  212 (633)
T TIGR02442       139 ----DDHLVDVLLDAAAMGVNRVEREGLSVSHPARFVLIGTMNPEEGDLRPQLLD--RFGLCVDVAAPRDPEERVEIIRR  212 (633)
T ss_pred             ----CHHHHHHHHHHHhcCCEEEEECCceeeecCCeEEEEecCCCCCCCCHHHHh--hcceEEEccCCCchHHHHHHHHH
Confidence                356778888888631           112468999988853 358889998  999989998764 5777777764

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>PRK06620 hypothetical protein; Validated

Probab=99.16  E-value=7.8e-10  Score=106.09  Aligned_cols=143  Identities=14%  Similarity=0.183  Sum_probs=89.8

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCC
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD  133 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~  133 (611)
                      ++++|+||||||||++++++++..+..++  +....           ....+         ....+|+|||+|.+-    
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~~~~--~~~~~-----------~~~~~---------~~~d~lliDdi~~~~----   98 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNAYII--KDIFF-----------NEEIL---------EKYNAFIIEDIENWQ----   98 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCCEEc--chhhh-----------chhHH---------hcCCEEEEeccccch----
Confidence            68999999999999999999988765322  21110           00111         123589999998441    


Q ss_pred             CCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc--ccHHhhccCCcc--eEEEccCCCHHHHHHHHHHhhcC
Q 007255          134 HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA--IDPALRRSGRFD--AEVEVTVPTAEERFEILKLYTKK  209 (611)
Q Consensus       134 ~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~--l~~~l~~~~Rf~--~~i~~~~p~~~~r~~Il~~~~~~  209 (611)
                           .    ..++.+++.....    +..++++++..|..  + +++++  |+.  ..+.+.+|+.+++..+++.....
T Consensus        99 -----~----~~lf~l~N~~~e~----g~~ilits~~~p~~l~l-~~L~S--Rl~~gl~~~l~~pd~~~~~~~l~k~~~~  162 (214)
T PRK06620         99 -----E----PALLHIFNIINEK----QKYLLLTSSDKSRNFTL-PDLSS--RIKSVLSILLNSPDDELIKILIFKHFSI  162 (214)
T ss_pred             -----H----HHHHHHHHHHHhc----CCEEEEEcCCCccccch-HHHHH--HHhCCceEeeCCCCHHHHHHHHHHHHHH
Confidence                 1    1333333322211    13566666655553  5 88998  764  47899999999999999887765


Q ss_pred             CCCCC-cccHHHHHHhccCCccccHHHHHHH
Q 007255          210 VPLDA-NVDLEAIATSCNGYVGADLEALCRE  239 (611)
Q Consensus       210 ~~~~~-~~~~~~la~~~~g~~~~dl~~l~~~  239 (611)
                      .++.- +.-++.++..+.| +.+.+.+++..
T Consensus       163 ~~l~l~~ev~~~L~~~~~~-d~r~l~~~l~~  192 (214)
T PRK06620        163 SSVTISRQIIDFLLVNLPR-EYSKIIEILEN  192 (214)
T ss_pred             cCCCCCHHHHHHHHHHccC-CHHHHHHHHHH
Confidence            54432 3347777777654 34445555554

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=99.15  E-value=1.9e-11  Score=104.08  Aligned_cols=117  Identities=25%  Similarity=0.345  Sum_probs=63.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccc-ccc-cccccchHHHHH-HHHHHHHhhhhcCCCeEEEEccccccCCC
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH-SVH-KAHVGESEKALR-EAFSQASSHALSGKPSVVFIDEIDALCPR  131 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~-~~~-~~~~~~~~~~l~-~~f~~~~~~~~~~~~~il~IDeid~l~~~  131 (611)
                      |+||.|+||+|||++++++|+.++..+..|.+. ++. ....|...-... ..|.-. ..+..  ..|+++||++...+ 
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~-~GPif--~~ill~DEiNrapp-   76 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFR-PGPIF--TNILLADEINRAPP-   76 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTTTEEEEE-E-TT---SSEEEEETGGGS-H-
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCCCeeEee-cChhh--hceeeecccccCCH-
Confidence            799999999999999999999999999887653 221 111110000000 000000 00000  24999999998765 


Q ss_pred             CCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCcEEEEEeecCcc-----cccHHhhccCCcc
Q 007255          132 RDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVVVVASTNRVD-----AIDPALRRSGRFD  186 (611)
Q Consensus       132 ~~~~~~~~~~~~~~ll~~l~~~~~~-----~~~~~~v~ii~ttn~~~-----~l~~~l~~~~Rf~  186 (611)
                               +.++.|++.|.+..-+     ...+..++||+|.|+.+     .+++++..  ||.
T Consensus        77 ---------ktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~D--RF~  130 (131)
T PF07726_consen   77 ---------KTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLD--RFM  130 (131)
T ss_dssp             ---------HHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHT--TSS
T ss_pred             ---------HHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhc--ccc
Confidence                     7799999999874322     22345689999999966     78888887  874

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.13  E-value=1.2e-10  Score=107.29  Aligned_cols=114  Identities=23%  Similarity=0.311  Sum_probs=76.6

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHhCC----cEEeecchhhccccccchHHHHHHHHHHH----HhcCCcEEEEccccc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAAEA----SFFSLSGAELYSMYVGESEALLRNTFQRA----RLAAPSIIFFDEADV  394 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~~~----~~~~~~~~~~~~~~~g~~~~~~~~~~~~a----~~~~p~il~iDeid~  394 (611)
                      |..++||+||+|||||.+|+++|..+..    +++.++++.+...  ++....+..+...+    ......|||+||||+
T Consensus         2 p~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~--~~~~~~~~~l~~~~~~~v~~~~~gVVllDEidK   79 (171)
T PF07724_consen    2 PKSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEG--DDVESSVSKLLGSPPGYVGAEEGGVVLLDEIDK   79 (171)
T ss_dssp             -SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSH--HHCSCHCHHHHHHTTCHHHHHHHTEEEEETGGG
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhccccc--chHHhhhhhhhhcccceeeccchhhhhhHHHhh
Confidence            4457999999999999999999999996    9999999988761  11111122222111    111223999999999


Q ss_pred             ccccCCCCCCCCcchhHHHHHHHHHHhcCCC---------CCCCeEEEEecCCCcc
Q 007255          395 VGAKRGGSSSTSITVGERLLSTLLTEMDGLE---------QAKGILVLAATNRPHA  441 (611)
Q Consensus       395 l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~~~vI~~tn~~~~  441 (611)
                      ....   .+...+.....+.+.||+.||+..         .-++++||+|+|.-..
T Consensus        80 a~~~---~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~~~  132 (171)
T PF07724_consen   80 AHPS---NSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFGAE  132 (171)
T ss_dssp             CSHT---TTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSSTH
T ss_pred             cccc---ccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEecccccc
Confidence            9765   122223334578899999997531         1246899999997654

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=99.13  E-value=3.4e-11  Score=112.06  Aligned_cols=127  Identities=26%  Similarity=0.297  Sum_probs=70.8

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc----EEEEcc----c-
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH----LTVISP----H-   87 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~----~~~v~~----~-   87 (611)
                      +|++|+|++.+|..|.-+..-               ..|+|++||||||||++++.+...+..-    ...+..    . 
T Consensus         1 Df~dI~GQe~aKrAL~iAAaG---------------~h~lLl~GppGtGKTmlA~~l~~lLP~l~~~e~le~~~i~s~~~   65 (206)
T PF01078_consen    1 DFSDIVGQEEAKRALEIAAAG---------------GHHLLLIGPPGTGKTMLARRLPSLLPPLTEEEALEVSKIYSVAG   65 (206)
T ss_dssp             -TCCSSSTHHHHHHHHHHHHC---------------C--EEEES-CCCTHHHHHHHHHHCS--CCEECCESS--S-TT--
T ss_pred             ChhhhcCcHHHHHHHHHHHcC---------------CCCeEEECCCCCCHHHHHHHHHHhCCCCchHHHhhhcccccccc
Confidence            478999999999999776421               3699999999999999999998766310    000000    0 


Q ss_pred             -----------ccccccccchHHHHHHHHHHHHh----hhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhc
Q 007255           88 -----------SVHKAHVGESEKALREAFSQASS----HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS  152 (611)
Q Consensus        88 -----------~~~~~~~~~~~~~l~~~f~~~~~----~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~  152 (611)
                                 -+.......+.   ..++.....    .......+|||+||+..+          ...++..|+..++.
T Consensus        66 ~~~~~~~~~~~Pfr~phhs~s~---~~liGgg~~~~PGeislAh~GVLflDE~~ef----------~~~vld~Lr~ple~  132 (206)
T PF01078_consen   66 LGPDEGLIRQRPFRAPHHSASE---AALIGGGRPPRPGEISLAHRGVLFLDELNEF----------DRSVLDALRQPLED  132 (206)
T ss_dssp             -S---EEEE---EEEE-TT--H---HHHHEEGGGEEE-CGGGGTTSEEEECETTTS-----------HHHHHHHHHHHHH
T ss_pred             CCCCCceecCCCcccCCCCcCH---HHHhCCCcCCCcCHHHHhcCCEEEechhhhc----------CHHHHHHHHHHHHC
Confidence                       00000011111   111111100    001234679999999765          33788899999876


Q ss_pred             CC-------CCCCCCCcEEEEEeecC
Q 007255          153 NK-------PSKTSVPHVVVVASTNR  171 (611)
Q Consensus       153 ~~-------~~~~~~~~v~ii~ttn~  171 (611)
                      ..       ...+.+.++++|+|+|+
T Consensus       133 g~v~i~R~~~~~~~Pa~f~lv~a~NP  158 (206)
T PF01078_consen  133 GEVTISRAGGSVTYPARFLLVAAMNP  158 (206)
T ss_dssp             SBEEEEETTEEEEEB--EEEEEEE-S
T ss_pred             CeEEEEECCceEEEecccEEEEEecc
Confidence            32       12223457899999998

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.13  E-value=3.1e-10  Score=118.65  Aligned_cols=160  Identities=18%  Similarity=0.219  Sum_probs=95.6

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC--cEEEEccc-cccccccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA--HLTVISPH-SVHKAHVG   95 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~--~~~~v~~~-~~~~~~~~   95 (611)
                      ..++|.+++++.+..++.               ...++||.||||||||++|++++..++.  +|..+.+. .......|
T Consensus        20 ~~i~gre~vI~lll~aal---------------ag~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~fttp~DLfG   84 (498)
T PRK13531         20 KGLYERSHAIRLCLLAAL---------------SGESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFG   84 (498)
T ss_pred             hhccCcHHHHHHHHHHHc---------------cCCCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeecCcHHhcC
Confidence            357888888888777653               3479999999999999999999998753  33333222 11111222


Q ss_pred             ch-HHHH--HHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCC----CCCCCCcEEEEEe
Q 007255           96 ES-EKAL--REAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP----SKTSVPHVVVVAS  168 (611)
Q Consensus        96 ~~-~~~l--~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~----~~~~~~~v~ii~t  168 (611)
                      .. ....  ...|.....+. .....+||+|||+.+.+          ..++.|+..|++...    .....+.-+++++
T Consensus        85 ~l~i~~~~~~g~f~r~~~G~-L~~A~lLfLDEI~rasp----------~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~A  153 (498)
T PRK13531         85 PLSIQALKDEGRYQRLTSGY-LPEAEIVFLDEIWKAGP----------AILNTLLTAINERRFRNGAHEEKIPMRLLVTA  153 (498)
T ss_pred             cHHHhhhhhcCchhhhcCCc-cccccEEeecccccCCH----------HHHHHHHHHHHhCeEecCCeEEeCCCcEEEEE
Confidence            11 0110  11121111110 00123899999987654          778999999965331    1111222344555


Q ss_pred             ecCcc---cccHHhhccCCcceEEEccCCC-HHHHHHHHHHh
Q 007255          169 TNRVD---AIDPALRRSGRFDAEVEVTVPT-AEERFEILKLY  206 (611)
Q Consensus       169 tn~~~---~l~~~l~~~~Rf~~~i~~~~p~-~~~r~~Il~~~  206 (611)
                      ||+..   ...+++..  ||...+.+|+|+ .++..+++...
T Consensus       154 TN~LPE~g~~leAL~D--RFliri~vp~l~~~~~e~~lL~~~  193 (498)
T PRK13531        154 SNELPEADSSLEALYD--RMLIRLWLDKVQDKANFRSMLTSQ  193 (498)
T ss_pred             CCCCcccCCchHHhHh--hEEEEEECCCCCchHHHHHHHHcc
Confidence            57532   23358887  998899999997 46667777653

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.12  E-value=3.9e-10  Score=116.21  Aligned_cols=133  Identities=27%  Similarity=0.343  Sum_probs=90.2

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc--cccchHHHHH----HHHHHHHh--cCC--cEEEEcccc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM--YVGESEALLR----NTFQRARL--AAP--SIIFFDEAD  393 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~--~~g~~~~~~~----~~~~~a~~--~~p--~il~iDeid  393 (611)
                      .+++||.||||||||++|+++|..++.+|+.+.+......  ..|...-..+    ..|.....  ...  +|+|+|||+
T Consensus        43 ~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~~~~~~~~~~~~~~~~~gpl~~~~~~ill~DEIn  122 (329)
T COG0714          43 GGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVPGPLFAAVRVILLLDEIN  122 (329)
T ss_pred             CCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCchhHhhhhccCCeEEEecCCcccccceEEEEeccc
Confidence            3579999999999999999999999999999988644332  1221111110    00000000  001  399999998


Q ss_pred             cccccCCCCCCCCcchhHHHHHHHHHHhcC----------CCCCCCeEEEEecCC-----CcccchhccCCCCccceeec
Q 007255          394 VVGAKRGGSSSTSITVGERLLSTLLTEMDG----------LEQAKGILVLAATNR-----PHAIDAALMRPGRFDLVLYV  458 (611)
Q Consensus       394 ~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~----------~~~~~~~~vI~~tn~-----~~~ld~al~r~gRf~~~i~~  458 (611)
                      ..              ...+.+.|+..|+.          ..-+..+++|+|+|.     -+.+++|+++  ||...+++
T Consensus       123 ra--------------~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~Np~e~~g~~~l~eA~ld--Rf~~~~~v  186 (329)
T COG0714         123 RA--------------PPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPLPEALLD--RFLLRIYV  186 (329)
T ss_pred             cC--------------CHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccCccccCCCcCCCHHHHh--hEEEEEec
Confidence            65              35677888888874          234467889988893     3468999999  99889999


Q ss_pred             CCC-CHHHHHHHHHH
Q 007255          459 PPP-DLEARHEILRV  472 (611)
Q Consensus       459 ~~p-~~~~r~~il~~  472 (611)
                      +.| +.++...+...
T Consensus       187 ~yp~~~~e~~~i~~~  201 (329)
T COG0714         187 DYPDSEEEERIILAR  201 (329)
T ss_pred             CCCCchHHHHHHHHh
Confidence            999 55555555543

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.10  E-value=2.9e-09  Score=116.46  Aligned_cols=206  Identities=11%  Similarity=0.087  Sum_probs=123.3

Q ss_pred             ccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEe-ecch
Q 007255          280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS-LSGA  358 (611)
Q Consensus       280 ~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~-~~~~  358 (611)
                      +...+.+.++++++|++...+.+..++....        ++..+.+.++|+||||||||++++++|.+++..+.. .++.
T Consensus        74 W~eKyrP~~ldel~~~~~ki~~l~~~l~~~~--------~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~npv  145 (637)
T TIGR00602        74 WVEKYKPETQHELAVHKKKIEEVETWLKAQV--------LENAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWSNPT  145 (637)
T ss_pred             hHHHhCCCCHHHhcCcHHHHHHHHHHHHhcc--------cccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHhhhh
Confidence            3445567789999999999998888876311        122344558999999999999999999999866544 2222


Q ss_pred             hhc---ccc------------ccchHHHHHHHHHHHHh----------cCCcEEEEcccccccccCCCCCCCCcchhHHH
Q 007255          359 ELY---SMY------------VGESEALLRNTFQRARL----------AAPSIIFFDEADVVGAKRGGSSSTSITVGERL  413 (611)
Q Consensus       359 ~~~---~~~------------~g~~~~~~~~~~~~a~~----------~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~  413 (611)
                      ...   ..|            .......++.++..+..          ....||||||++.++..           ..+.
T Consensus       146 ~~~~~~~~~~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r-----------~~~~  214 (637)
T TIGR00602       146 LPDFQKNDHKVTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYR-----------DTRA  214 (637)
T ss_pred             hhcccccccccchhhhhccccccchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchh-----------hHHH
Confidence            110   000            01122334455554431          23459999999987532           1223


Q ss_pred             HHHHHH-HhcCCCCCCCeEEEEecCC-Cc--------------ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCC
Q 007255          414 LSTLLT-EMDGLEQAKGILVLAATNR-PH--------------AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNM  477 (611)
Q Consensus       414 ~~~ll~-~l~~~~~~~~~~vI~~tn~-~~--------------~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~  477 (611)
                      +..+|. ...   ..+++.+|++++. |.              .+.++++...|+. +|.|++.+.....+.|+..+...
T Consensus       215 lq~lLr~~~~---e~~~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~-~I~FnPia~t~l~K~L~rIl~~E  290 (637)
T TIGR00602       215 LHEILRWKYV---SIGRCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRVS-NISFNPIAPTIMKKFLNRIVTIE  290 (637)
T ss_pred             HHHHHHHHhh---cCCCceEEEEecCCccccccccccccchhcccCHhHhccccee-EEEeCCCCHHHHHHHHHHHHHhh
Confidence            444544 221   2345555555542 22              1336676422454 79999999999777777665432


Q ss_pred             CC--------CCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 007255          478 KV--------GDDVDLRSIAEETELFTGAELEGLCREAGIVAL  512 (611)
Q Consensus       478 ~~--------~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~  512 (611)
                      ..        .....+..++..+.|    ||+.++......+.
T Consensus       291 ~~~~~~~~~~p~~~~l~~I~~~s~G----DiRsAIn~LQf~~~  329 (637)
T TIGR00602       291 AKKNGEKIKVPKKTSVELLCQGCSG----DIRSAINSLQFSSS  329 (637)
T ss_pred             hhccccccccCCHHHHHHHHHhCCC----hHHHHHHHHHHHHh
Confidence            11        122356677775554    88887776555443

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=99.09  E-value=1.6e-09  Score=111.32  Aligned_cols=173  Identities=22%  Similarity=0.315  Sum_probs=111.5

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEID  126 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid  126 (611)
                      .-++++||||+|+|||+|+++++++.     +..++++++..+...........--.-|++..      .-.+++|||++
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y------~~dlllIDDiq  185 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKY------SLDLLLIDDIQ  185 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHhhhHHHHHHhh------ccCeeeechHh
Confidence            45899999999999999999998876     23567777666544332221111112232222      13489999999


Q ss_pred             ccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc---ccHHhhccCCcc--eEEEccCCCHHHHHH
Q 007255          127 ALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA---IDPALRRSGRFD--AEVEVTVPTAEERFE  201 (611)
Q Consensus       127 ~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~---l~~~l~~~~Rf~--~~i~~~~p~~~~r~~  201 (611)
                      .+....        .++..++..+.......    +-+++.+...|..   +.|+|++  ||.  ..+.+.+|+.+.|..
T Consensus       186 ~l~gk~--------~~qeefFh~FN~l~~~~----kqIvltsdr~P~~l~~~~~rL~S--R~~~Gl~~~I~~Pd~e~r~a  251 (408)
T COG0593         186 FLAGKE--------RTQEEFFHTFNALLENG----KQIVLTSDRPPKELNGLEDRLRS--RLEWGLVVEIEPPDDETRLA  251 (408)
T ss_pred             HhcCCh--------hHHHHHHHHHHHHHhcC----CEEEEEcCCCchhhccccHHHHH--HHhceeEEeeCCCCHHHHHH
Confidence            887643        44566666665543322    2355555555664   4599999  664  678999999999999


Q ss_pred             HHHHhhcCCCCCCcc-cHHHHHHhccCCccccHHHHHHHHHHHHh
Q 007255          202 ILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREATMSAV  245 (611)
Q Consensus       202 Il~~~~~~~~~~~~~-~~~~la~~~~g~~~~dl~~l~~~a~~~a~  245 (611)
                      |++......++.-.. -...++.+.. -+.++++..+......+.
T Consensus       252 iL~kka~~~~~~i~~ev~~~la~~~~-~nvReLegaL~~l~~~a~  295 (408)
T COG0593         252 ILRKKAEDRGIEIPDEVLEFLAKRLD-RNVRELEGALNRLDAFAL  295 (408)
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHhh-ccHHHHHHHHHHHHHHHH
Confidence            999977766655433 3566666544 345666666665554443

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.09  E-value=1e-10  Score=104.76  Aligned_cols=110  Identities=25%  Similarity=0.370  Sum_probs=70.9

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecchhh------ccccccchH--HHHHHHHHHHHhcCCcEEEEcccccccc
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL------YSMYVGESE--ALLRNTFQRARLAAPSIIFFDEADVVGA  397 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~------~~~~~g~~~--~~~~~~~~~a~~~~p~il~iDeid~l~~  397 (611)
                      ++||+||||||||++|+.+|..++.+++.+++...      .+.|.-...  ......+-.+. ..+.|++|||++..  
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~-~~~~il~lDEin~a--   77 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAM-RKGGILVLDEINRA--   77 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTH-HEEEEEEESSCGG---
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccc-cceeEEEECCcccC--
Confidence            47999999999999999999999999988877543      222221100  00000000000 15679999999865  


Q ss_pred             cCCCCCCCCcchhHHHHHHHHHHhcCCC-----------CCC------CeEEEEecCCCc----ccchhccCCCCc
Q 007255          398 KRGGSSSTSITVGERLLSTLLTEMDGLE-----------QAK------GILVLAATNRPH----AIDAALMRPGRF  452 (611)
Q Consensus       398 ~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~------~~~vI~~tn~~~----~ld~al~r~gRf  452 (611)
                                  ...++..|+..++.-.           ...      ++.+|+|+|.++    .+++++++  ||
T Consensus        78 ------------~~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~l~~al~~--Rf  139 (139)
T PF07728_consen   78 ------------PPEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKELSPALLD--RF  139 (139)
T ss_dssp             -------------HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTTTCHHHHT--T-
T ss_pred             ------------CHHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCcCCHHHHh--hC
Confidence                        2556677777766421           011      389999999988    89999999  87

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=99.09  E-value=5.4e-10  Score=99.75  Aligned_cols=126  Identities=30%  Similarity=0.351  Sum_probs=82.4

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCc---EEeecchhhccc--------------cccchHHHHHHHHHHHHhcCCcE
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEAS---FFSLSGAELYSM--------------YVGESEALLRNTFQRARLAAPSI  386 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~---~~~~~~~~~~~~--------------~~g~~~~~~~~~~~~a~~~~p~i  386 (611)
                      +..++|+||||||||++++.+|..+...   ++.++++.....              ............+..++...+++
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v   81 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDV   81 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCCE
Confidence            3578999999999999999999999775   888887755432              22334556778888888877899


Q ss_pred             EEEcccccccccCCCCCCCCcchhHHHHHHH--HHHhcCCCCCCCeEEEEecCC-CcccchhccCCCCccceeecCCC
Q 007255          387 IFFDEADVVGAKRGGSSSTSITVGERLLSTL--LTEMDGLEQAKGILVLAATNR-PHAIDAALMRPGRFDLVLYVPPP  461 (611)
Q Consensus       387 l~iDeid~l~~~~~~~~~~~~~~~~~~~~~l--l~~l~~~~~~~~~~vI~~tn~-~~~ld~al~r~gRf~~~i~~~~p  461 (611)
                      ++|||++.+.....          .......  ..............+|+++|. ....+..+.+  |++..+.++.+
T Consensus        82 iiiDei~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~--~~~~~~~~~~~  147 (148)
T smart00382       82 LILDEITSLLDAEQ----------EALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR--RFDRRIVLLLI  147 (148)
T ss_pred             EEEECCcccCCHHH----------HHHHHhhhhhHHHHHHHhcCCCEEEEEeCCCccCchhhhhh--ccceEEEecCC
Confidence            99999998853310          0000000  000011124556788888886 3334444444  88878777654

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=99.08  E-value=5.7e-09  Score=105.44  Aligned_cols=174  Identities=18%  Similarity=0.260  Sum_probs=117.1

Q ss_pred             cHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---------------------EE
Q 007255           24 NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------------LT   82 (611)
Q Consensus        24 ~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---------------------~~   82 (611)
                      ++.+.+.|...+..            -+.|..+||+||+|+||+++|.++|+.+.+.                     +.
T Consensus         9 ~~~~~~~l~~~~~~------------~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~   76 (319)
T PRK08769          9 QQRAYDQTVAALDA------------GRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQ   76 (319)
T ss_pred             HHHHHHHHHHHHHc------------CCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEE
Confidence            55666777666532            2355679999999999999999999887432                     11


Q ss_pred             EE--cccccccc-cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCC
Q 007255           83 VI--SPHSVHKA-HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS  159 (611)
Q Consensus        83 ~v--~~~~~~~~-~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  159 (611)
                      .+  .+..-... ...-....++++.+.....+..+...|++||++|.|..          ...+.|++.+++      +
T Consensus        77 ~i~~~p~~~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~----------~AaNaLLKtLEE------P  140 (319)
T PRK08769         77 LVSFIPNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINR----------AACNALLKTLEE------P  140 (319)
T ss_pred             EEecCCCcccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCH----------HHHHHHHHHhhC------C
Confidence            11  01000000 00112445666666555555455567999999998854          668999999997      4


Q ss_pred             CCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccH
Q 007255          160 VPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADL  233 (611)
Q Consensus       160 ~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl  233 (611)
                      +++++||.+|+.++.+.|.++|  |+. .+.|++|+.++..+.+...    ..+. .+...++..++|..+..+
T Consensus       141 p~~~~fiL~~~~~~~lLpTIrS--RCq-~i~~~~~~~~~~~~~L~~~----~~~~-~~a~~~~~l~~G~p~~A~  206 (319)
T PRK08769        141 SPGRYLWLISAQPARLPATIRS--RCQ-RLEFKLPPAHEALAWLLAQ----GVSE-RAAQEALDAARGHPGLAA  206 (319)
T ss_pred             CCCCeEEEEECChhhCchHHHh--hhe-EeeCCCcCHHHHHHHHHHc----CCCh-HHHHHHHHHcCCCHHHHH
Confidence            4467888889999999999999  984 8899999999888887642    2221 224456666777655443

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=99.08  E-value=8.1e-09  Score=103.56  Aligned_cols=195  Identities=19%  Similarity=0.245  Sum_probs=112.4

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCC-cEEE---Eccc----c----ccc----ccccc-hHHHHHHHHHHHHhhhhcC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGA-HLTV---ISPH----S----VHK----AHVGE-SEKALREAFSQASSHALSG  115 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~-~~~~---v~~~----~----~~~----~~~~~-~~~~l~~~f~~~~~~~~~~  115 (611)
                      +..++|+||+|+|||++++.+++.+.. .+..   +++.    +    +..    ...+. ....+..+..........+
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~~~~  122 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQFAAG  122 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHhCC
Confidence            346899999999999999999998863 2221   1111    0    000    00011 1111222222222222345


Q ss_pred             CCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC--cccc----cHHhhccCCcceEE
Q 007255          116 KPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR--VDAI----DPALRRSGRFDAEV  189 (611)
Q Consensus       116 ~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~--~~~l----~~~l~~~~Rf~~~i  189 (611)
                      ++.+|+|||++.+.+          .....+..+.+ .....  ...+.++.+..+  .+.+    ...+.+  |+...+
T Consensus       123 ~~~vliiDe~~~l~~----------~~~~~l~~l~~-~~~~~--~~~~~vvl~g~~~~~~~l~~~~~~~l~~--r~~~~~  187 (269)
T TIGR03015       123 KRALLVVDEAQNLTP----------ELLEELRMLSN-FQTDN--AKLLQIFLVGQPEFRETLQSPQLQQLRQ--RIIASC  187 (269)
T ss_pred             CCeEEEEECcccCCH----------HHHHHHHHHhC-cccCC--CCeEEEEEcCCHHHHHHHcCchhHHHHh--heeeee
Confidence            678999999998743          22233322222 11111  112333333222  1122    123555  777789


Q ss_pred             EccCCCHHHHHHHHHHhhcCCCC-----CCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHH
Q 007255          190 EVTVPTAEERFEILKLYTKKVPL-----DANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMED  264 (611)
Q Consensus       190 ~~~~p~~~~r~~Il~~~~~~~~~-----~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed  264 (611)
                      ++++++.++..+++...+...+.     -.+..++.+...+.|... .+..++..+...+..+..+        .++.++
T Consensus       188 ~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~-~i~~l~~~~~~~a~~~~~~--------~i~~~~  258 (269)
T TIGR03015       188 HLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPR-LINILCDRLLLSAFLEEKR--------EIGGEE  258 (269)
T ss_pred             eCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCccc-HHHHHHHHHHHHHHHcCCC--------CCCHHH
Confidence            99999999999999988764432     123457888899999864 4999999998877664332        467777


Q ss_pred             HHHHHhc
Q 007255          265 WRHARSV  271 (611)
Q Consensus       265 ~~~a~~~  271 (611)
                      +..+...
T Consensus       259 v~~~~~~  265 (269)
T TIGR03015       259 VREVIAE  265 (269)
T ss_pred             HHHHHHH
Confidence            7666544

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=99.08  E-value=7.6e-09  Score=104.70  Aligned_cols=168  Identities=16%  Similarity=0.218  Sum_probs=116.8

Q ss_pred             cHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc-----------------------
Q 007255           24 NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-----------------------   80 (611)
Q Consensus        24 ~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-----------------------   80 (611)
                      +....+.|...+..            -+.+..+||+||+|+||+++|+.+|+.+.+.                       
T Consensus         7 ~~~~~~~l~~~~~~------------~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HP   74 (325)
T PRK06871          7 LQPTYQQITQAFQQ------------GLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHP   74 (325)
T ss_pred             hHHHHHHHHHHHHc------------CCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            45556666665532            2346789999999999999999999988542                       


Q ss_pred             -EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCC
Q 007255           81 -LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS  159 (611)
Q Consensus        81 -~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  159 (611)
                       +..+.+.    ....-....++++.+.....+..+...|++||++|.|..          ...+.|++.+++      +
T Consensus        75 D~~~i~p~----~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~----------~AaNaLLKtLEE------P  134 (325)
T PRK06871         75 DFHILEPI----DNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTE----------AAANALLKTLEE------P  134 (325)
T ss_pred             CEEEEccc----cCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCH----------HHHHHHHHHhcC------C
Confidence             1111110    001123456666666666555556667999999999854          678999999997      5


Q ss_pred             CCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCcc
Q 007255          160 VPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVG  230 (611)
Q Consensus       160 ~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~  230 (611)
                      ++++++|.+|+.++.+.|.++|  |+. .+.|++|+.++..+.+.....    ........++..+.|..+
T Consensus       135 p~~~~fiL~t~~~~~llpTI~S--RC~-~~~~~~~~~~~~~~~L~~~~~----~~~~~~~~~~~l~~g~p~  198 (325)
T PRK06871        135 RPNTYFLLQADLSAALLPTIYS--RCQ-TWLIHPPEEQQALDWLQAQSS----AEISEILTALRINYGRPL  198 (325)
T ss_pred             CCCeEEEEEECChHhCchHHHh--hce-EEeCCCCCHHHHHHHHHHHhc----cChHHHHHHHHHcCCCHH
Confidence            5578899999999999999999  984 899999999999888876432    112124444555555444

>PRK04132 replication factor C small subunit; Provisional

Probab=99.07  E-value=2.2e-09  Score=120.35  Aligned_cols=155  Identities=19%  Similarity=0.195  Sum_probs=115.7

Q ss_pred             ceEEEEc--CCCCcHHHHHHHHHHHh-----CCcEEEEcccccccccccchHHHHHHHHHHHHhhhhc--CCCeEEEEcc
Q 007255           54 RGLLLYG--PPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALS--GKPSVVFIDE  124 (611)
Q Consensus        54 ~~iLl~G--p~GtGKT~la~~la~~l-----~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~--~~~~il~IDe  124 (611)
                      -+-+..|  |++.||||+|+++|+++     +.+++.+|+++..+      ...++.+.+........  .+..|+||||
T Consensus       565 ~~~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rg------id~IR~iIk~~a~~~~~~~~~~KVvIIDE  638 (846)
T PRK04132        565 YHNFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERG------INVIREKVKEFARTKPIGGASFKIIFLDE  638 (846)
T ss_pred             hhhhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCccc------HHHHHHHHHHHHhcCCcCCCCCEEEEEEC
Confidence            4556779  99999999999999998     45799999987422      12344444443322111  1346999999


Q ss_pred             ccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHH
Q 007255          125 IDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILK  204 (611)
Q Consensus       125 id~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~  204 (611)
                      +|.|..          ..++.|+..|+...      .++.+|++||+++.+.+++++  || ..+.|++|+.++....++
T Consensus       639 aD~Lt~----------~AQnALLk~lEep~------~~~~FILi~N~~~kIi~tIrS--RC-~~i~F~~ls~~~i~~~L~  699 (846)
T PRK04132        639 ADALTQ----------DAQQALRRTMEMFS------SNVRFILSCNYSSKIIEPIQS--RC-AIFRFRPLRDEDIAKRLR  699 (846)
T ss_pred             cccCCH----------HHHHHHHHHhhCCC------CCeEEEEEeCChhhCchHHhh--hc-eEEeCCCCCHHHHHHHHH
Confidence            999854          56889999999732      357899999999999999998  88 489999999999999998


Q ss_pred             HhhcCCCCC-CcccHHHHHHhccCCccccH
Q 007255          205 LYTKKVPLD-ANVDLEAIATSCNGYVGADL  233 (611)
Q Consensus       205 ~~~~~~~~~-~~~~~~~la~~~~g~~~~dl  233 (611)
                      ..+...++. .+..+..++..++|-....+
T Consensus       700 ~I~~~Egi~i~~e~L~~Ia~~s~GDlR~AI  729 (846)
T PRK04132        700 YIAENEGLELTEEGLQAILYIAEGDMRRAI  729 (846)
T ss_pred             HHHHhcCCCCCHHHHHHHHHHcCCCHHHHH
Confidence            887755443 23458888888887654444

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.06  E-value=2.3e-08  Score=95.10  Aligned_cols=185  Identities=22%  Similarity=0.290  Sum_probs=126.3

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC---c------------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA---H------------   80 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~---~------------   80 (611)
                      +.++.+.+.++....|......             .--.|+++|||+|+||-|.+.++.+++-.   +            
T Consensus        10 ksl~~l~~~~e~~~~Lksl~~~-------------~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tp   76 (351)
T KOG2035|consen   10 KSLDELIYHEELANLLKSLSST-------------GDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTP   76 (351)
T ss_pred             chhhhcccHHHHHHHHHHhccc-------------CCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecC
Confidence            5567788888877777665421             11269999999999999999999998721   1            


Q ss_pred             ------EEEEccc---ccccccccchHH-HHHHHHHHHHhhhh---cC--CCeEEEEccccccCCCCCCCchhhHHHHHH
Q 007255           81 ------LTVISPH---SVHKAHVGESEK-ALREAFSQASSHAL---SG--KPSVVFIDEIDALCPRRDHRREQDVRIASQ  145 (611)
Q Consensus        81 ------~~~v~~~---~~~~~~~~~~~~-~l~~~f~~~~~~~~---~~--~~~il~IDeid~l~~~~~~~~~~~~~~~~~  145 (611)
                            +-+++..   ++.....|..++ .++++.++..+...   .+  .-.|++|.|+|.|..          +.+..
T Consensus        77 S~kklEistvsS~yHlEitPSDaG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~LT~----------dAQ~a  146 (351)
T KOG2035|consen   77 SKKKLEISTVSSNYHLEITPSDAGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADELTR----------DAQHA  146 (351)
T ss_pred             CCceEEEEEecccceEEeChhhcCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhhhH----------HHHHH
Confidence                  0011100   011112233333 34555555443221   11  124899999998854          67889


Q ss_pred             HHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHh
Q 007255          146 LFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATS  224 (611)
Q Consensus       146 ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~  224 (611)
                      |.+.|+.+..      ++.+|..||..+.+-+++++  |+. .+.+|.|+.++...+++..+++.++... ..+..+++.
T Consensus       147 LRRTMEkYs~------~~RlIl~cns~SriIepIrS--RCl-~iRvpaps~eeI~~vl~~v~~kE~l~lp~~~l~rIa~k  217 (351)
T KOG2035|consen  147 LRRTMEKYSS------NCRLILVCNSTSRIIEPIRS--RCL-FIRVPAPSDEEITSVLSKVLKKEGLQLPKELLKRIAEK  217 (351)
T ss_pred             HHHHHHHHhc------CceEEEEecCcccchhHHhh--hee-EEeCCCCCHHHHHHHHHHHHHHhcccCcHHHHHHHHHH
Confidence            9999987654      46788889999999999999  874 7899999999999999999987776533 346777777


Q ss_pred             ccCCcccc
Q 007255          225 CNGYVGAD  232 (611)
Q Consensus       225 ~~g~~~~d  232 (611)
                      ++|.-.+.
T Consensus       218 S~~nLRrA  225 (351)
T KOG2035|consen  218 SNRNLRRA  225 (351)
T ss_pred             hcccHHHH
Confidence            77654443

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=99.06  E-value=5.4e-09  Score=104.54  Aligned_cols=78  Identities=29%  Similarity=0.395  Sum_probs=50.1

Q ss_pred             CeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC------------cccccHHhhccCC
Q 007255          117 PSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR------------VDAIDPALRRSGR  184 (611)
Q Consensus       117 ~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~------------~~~l~~~l~~~~R  184 (611)
                      |+||||||+|.|          +.+..+.|.+.++..-      .++ +|.+||+            |..++..|+.  |
T Consensus       279 pGVLFIDEvHmL----------DiEcFsfLnralEs~~------sPi-iIlATNRg~~~irGt~~~sphGiP~DlLD--R  339 (398)
T PF06068_consen  279 PGVLFIDEVHML----------DIECFSFLNRALESEL------SPI-IILATNRGITKIRGTDIISPHGIPLDLLD--R  339 (398)
T ss_dssp             E-EEEEESGGGS----------BHHHHHHHHHHHTSTT--------E-EEEEES-SEEE-BTTS-EEETT--HHHHT--T
T ss_pred             cceEEecchhhc----------cHHHHHHHHHHhcCCC------CcE-EEEecCceeeeccCccCcCCCCCCcchHh--h
Confidence            789999999987          3356677777777522      134 4555664            4577889988  8


Q ss_pred             cceEEEccCCCHHHHHHHHHHhhcCCCCCC
Q 007255          185 FDAEVEVTVPTAEERFEILKLYTKKVPLDA  214 (611)
Q Consensus       185 f~~~i~~~~p~~~~r~~Il~~~~~~~~~~~  214 (611)
                      +. .|...+++.++..+|++.+++.....-
T Consensus       340 ll-II~t~py~~~ei~~Il~iR~~~E~v~i  368 (398)
T PF06068_consen  340 LL-IIRTKPYSEEEIKQILKIRAKEEDVEI  368 (398)
T ss_dssp             EE-EEEE----HHHHHHHHHHHHHHCT--B
T ss_pred             cE-EEECCCCCHHHHHHHHHhhhhhhcCcC
Confidence            74 889999999999999999987765543

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.06  E-value=1e-09  Score=121.94  Aligned_cols=147  Identities=22%  Similarity=0.300  Sum_probs=109.7

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEeecchhhcc--ccccchHHHHHHHHHHHH-hcCCcEEE
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSGAELYS--MYVGESEALLRNTFQRAR-LAAPSIIF  388 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~~~~~~~~--~~~g~~~~~~~~~~~~a~-~~~p~il~  388 (611)
                      +..++-+|+|.||+|||.++.-+|+..          +..++.++...+..  ++.|+.+..++.+.+.+. .....|||
T Consensus       206 rtk~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~aGa~~rge~E~rlk~l~k~v~~~~~gvILf  285 (898)
T KOG1051|consen  206 KTKNNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVAGAKRRGEFEERLKELLKEVESGGGGVILF  285 (898)
T ss_pred             cCCCCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhcccCcccchHHHHHHHHHHHHHhcCCCcEEEE
Confidence            334789999999999999999999877          45677777765543  689999999999999988 44566999


Q ss_pred             EcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCc-----ccchhccCCCCccceeecCCCCH
Q 007255          389 FDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH-----AIDAALMRPGRFDLVLYVPPPDL  463 (611)
Q Consensus       389 iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~  463 (611)
                      |||+|.+.+....  .+    .....+ +|+.+   ...+++.+||||+...     +-||++-|  ||+ .+.++.|+.
T Consensus       286 igelh~lvg~g~~--~~----~~d~~n-lLkp~---L~rg~l~~IGatT~e~Y~k~iekdPalEr--rw~-l~~v~~pS~  352 (898)
T KOG1051|consen  286 LGELHWLVGSGSN--YG----AIDAAN-LLKPL---LARGGLWCIGATTLETYRKCIEKDPALER--RWQ-LVLVPIPSV  352 (898)
T ss_pred             ecceeeeecCCCc--ch----HHHHHH-hhHHH---HhcCCeEEEecccHHHHHHHHhhCcchhh--Ccc-eeEeccCcc
Confidence            9999999876533  11    112222 23332   2555699999988433     46999999  999 788999999


Q ss_pred             HHHHHHHHHHhcCCCCCC
Q 007255          464 EARHEILRVHTRNMKVGD  481 (611)
Q Consensus       464 ~~r~~il~~~~~~~~~~~  481 (611)
                      +....|++.....+..++
T Consensus       353 ~~~~~iL~~l~~~~e~~h  370 (898)
T KOG1051|consen  353 ENLSLILPGLSERYEVHH  370 (898)
T ss_pred             cchhhhhhhhhhhhcccc
Confidence            888888887666654443

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.05  E-value=2.5e-09  Score=104.14  Aligned_cols=83  Identities=25%  Similarity=0.400  Sum_probs=62.2

Q ss_pred             cEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--------CCCCeEEEEec----CCCcccchhccCCCCc
Q 007255          385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--------QAKGILVLAAT----NRPHAIDAALMRPGRF  452 (611)
Q Consensus       385 ~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~~~~~vI~~t----n~~~~ld~al~r~gRf  452 (611)
                      .|+||||||.++.+.+.++  .+-...-++..||-.++|..        ..+.++||++.    ..|++|-|.|-  |||
T Consensus       252 GIvFIDEIDKIa~~~~~g~--~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIasGAFh~sKPSDLiPELQ--GRf  327 (444)
T COG1220         252 GIVFIDEIDKIAKRGGSGG--PDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIASGAFHVAKPSDLIPELQ--GRF  327 (444)
T ss_pred             CeEEEehhhHHHhcCCCCC--CCcchhhhcccccccccCceeeccccccccceEEEEecCceecCChhhcChhhc--CCC
Confidence            4999999999987754222  12223356778888887642        34579999876    46888888887  599


Q ss_pred             cceeecCCCCHHHHHHHHH
Q 007255          453 DLVLYVPPPDLEARHEILR  471 (611)
Q Consensus       453 ~~~i~~~~p~~~~r~~il~  471 (611)
                      ...+.+...+.++-..||.
T Consensus       328 PIRVEL~~Lt~~Df~rILt  346 (444)
T COG1220         328 PIRVELDALTKEDFERILT  346 (444)
T ss_pred             ceEEEcccCCHHHHHHHHc
Confidence            9999999999999999986

>PRK09087 hypothetical protein; Validated

Probab=99.05  E-value=3.9e-09  Score=102.17  Aligned_cols=137  Identities=22%  Similarity=0.266  Sum_probs=88.5

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCC
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD  133 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~  133 (611)
                      +.++|+||+|+|||++++++++..+..  +++...+..           ..+....       ..+|+|||++.+...  
T Consensus        45 ~~l~l~G~~GsGKThLl~~~~~~~~~~--~i~~~~~~~-----------~~~~~~~-------~~~l~iDDi~~~~~~--  102 (226)
T PRK09087         45 PVVVLAGPVGSGKTHLASIWREKSDAL--LIHPNEIGS-----------DAANAAA-------EGPVLIEDIDAGGFD--  102 (226)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhcCCE--EecHHHcch-----------HHHHhhh-------cCeEEEECCCCCCCC--
Confidence            569999999999999999999876654  333322211           1111111       237889999876321  


Q ss_pred             CCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc---ccHHhhccCCc--ceEEEccCCCHHHHHHHHHHhhc
Q 007255          134 HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA---IDPALRRSGRF--DAEVEVTVPTAEERFEILKLYTK  208 (611)
Q Consensus       134 ~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~---l~~~l~~~~Rf--~~~i~~~~p~~~~r~~Il~~~~~  208 (611)
                               ...++.+++......    ..++++++..+..   ..+++++  |+  ...+.+.+|+.+++.+|++..+.
T Consensus       103 ---------~~~lf~l~n~~~~~g----~~ilits~~~p~~~~~~~~dL~S--Rl~~gl~~~l~~pd~e~~~~iL~~~~~  167 (226)
T PRK09087        103 ---------ETGLFHLINSVRQAG----TSLLMTSRLWPSSWNVKLPDLKS--RLKAATVVEIGEPDDALLSQVIFKLFA  167 (226)
T ss_pred             ---------HHHHHHHHHHHHhCC----CeEEEECCCChHHhccccccHHH--HHhCCceeecCCCCHHHHHHHHHHHHH
Confidence                     123444444322211    2456666655542   3688988  66  36899999999999999999887


Q ss_pred             CCCCCC-cccHHHHHHhccC
Q 007255          209 KVPLDA-NVDLEAIATSCNG  227 (611)
Q Consensus       209 ~~~~~~-~~~~~~la~~~~g  227 (611)
                      ...+.- +..++.++....|
T Consensus       168 ~~~~~l~~ev~~~La~~~~r  187 (226)
T PRK09087        168 DRQLYVDPHVVYYLVSRMER  187 (226)
T ss_pred             HcCCCCCHHHHHHHHHHhhh
Confidence            765543 3347778877663

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=99.04  E-value=1.5e-08  Score=101.59  Aligned_cols=189  Identities=17%  Similarity=0.226  Sum_probs=115.3

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCC-cEEe-------ecchhhcc----c----cccch-HHHHHHHH----HHHHhcC
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEA-SFFS-------LSGAELYS----M----YVGES-EALLRNTF----QRARLAA  383 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~-~~~~-------~~~~~~~~----~----~~g~~-~~~~~~~~----~~a~~~~  383 (611)
                      ..++|+||+|+|||++++.+++.+.. .+..       .+..++..    .    ..+.. ......+.    .......
T Consensus        44 ~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~~~~~  123 (269)
T TIGR03015        44 GFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQFAAGK  123 (269)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHhCCC
Confidence            35789999999999999999998752 2221       11111111    1    11111 11122222    2233456


Q ss_pred             CcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-CCCC-eEEEEecCCCc---ccc----hhccCCCCccc
Q 007255          384 PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-QAKG-ILVLAATNRPH---AID----AALMRPGRFDL  454 (611)
Q Consensus       384 p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-~~~~-~~vI~~tn~~~---~ld----~al~r~gRf~~  454 (611)
                      +.+++|||+|.+.              ......+ ..+-... .... +.|++ +..|+   .+.    ..+.+  |+..
T Consensus       124 ~~vliiDe~~~l~--------------~~~~~~l-~~l~~~~~~~~~~~~vvl-~g~~~~~~~l~~~~~~~l~~--r~~~  185 (269)
T TIGR03015       124 RALLVVDEAQNLT--------------PELLEEL-RMLSNFQTDNAKLLQIFL-VGQPEFRETLQSPQLQQLRQ--RIIA  185 (269)
T ss_pred             CeEEEEECcccCC--------------HHHHHHH-HHHhCcccCCCCeEEEEE-cCCHHHHHHHcCchhHHHHh--heee
Confidence            6799999999872              1122222 2222111 1222 33333 33333   221    12444  7778


Q ss_pred             eeecCCCCHHHHHHHHHHHhcCCCC-----CCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHH
Q 007255          455 VLYVPPPDLEARHEILRVHTRNMKV-----GDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTV  529 (611)
Q Consensus       455 ~i~~~~p~~~~r~~il~~~~~~~~~-----~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~  529 (611)
                      .+.+++.+.++...++...+...+.     .++..++.+.+.+.|. ++.|..+|..+...+..+.  ...|+.+++..+
T Consensus       186 ~~~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~-p~~i~~l~~~~~~~a~~~~--~~~i~~~~v~~~  262 (269)
T TIGR03015       186 SCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGI-PRLINILCDRLLLSAFLEE--KREIGGEEVREV  262 (269)
T ss_pred             eeeCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCc-ccHHHHHHHHHHHHHHHcC--CCCCCHHHHHHH
Confidence            8999999999999999877654332     2445688899999996 5669999999998887764  467999999998


Q ss_pred             HhhcC
Q 007255          530 KDSLK  534 (611)
Q Consensus       530 l~~~~  534 (611)
                      +..++
T Consensus       263 ~~~~~  267 (269)
T TIGR03015       263 IAEID  267 (269)
T ss_pred             HHHhh
Confidence            87654

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.04  E-value=1.9e-09  Score=112.76  Aligned_cols=151  Identities=21%  Similarity=0.246  Sum_probs=90.6

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC--cEEee-----cchhhccc
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA--SFFSL-----SGAELYSM  363 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~--~~~~~-----~~~~~~~~  363 (611)
                      .++|.+++.+.+...+.               ...++||+||||||||++|++++..++.  +|..+     .++++.+.
T Consensus        21 ~i~gre~vI~lll~aal---------------ag~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~fttp~DLfG~   85 (498)
T PRK13531         21 GLYERSHAIRLCLLAAL---------------SGESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGP   85 (498)
T ss_pred             hccCcHHHHHHHHHHHc---------------cCCCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeecCcHHhcCc
Confidence            36677777776666544               2357999999999999999999998743  23222     23344332


Q ss_pred             cccchHHHHHHHHHHHHhc---CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--------CCCCeEE
Q 007255          364 YVGESEALLRNTFQRARLA---APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--------QAKGILV  432 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~---~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~~~~~v  432 (611)
                      ....... -..-|......   ...++|+|||..+              +....+.||..|..-.        +-+..++
T Consensus        86 l~i~~~~-~~g~f~r~~~G~L~~A~lLfLDEI~ra--------------sp~~QsaLLeam~Er~~t~g~~~~~lp~rfi  150 (498)
T PRK13531         86 LSIQALK-DEGRYQRLTSGYLPEAEIVFLDEIWKA--------------GPAILNTLLTAINERRFRNGAHEEKIPMRLL  150 (498)
T ss_pred             HHHhhhh-hcCchhhhcCCccccccEEeecccccC--------------CHHHHHHHHHHHHhCeEecCCeEEeCCCcEE
Confidence            1000000 00112111111   2349999999754              3678899999884211        1122344


Q ss_pred             EEecCCCc---ccchhccCCCCccceeecCCCC-HHHHHHHHHHH
Q 007255          433 LAATNRPH---AIDAALMRPGRFDLVLYVPPPD-LEARHEILRVH  473 (611)
Q Consensus       433 I~~tn~~~---~ld~al~r~gRf~~~i~~~~p~-~~~r~~il~~~  473 (611)
                      ++|||...   ...++++.  ||-..+.+|+|+ .++-..|+...
T Consensus       151 v~ATN~LPE~g~~leAL~D--RFliri~vp~l~~~~~e~~lL~~~  193 (498)
T PRK13531        151 VTASNELPEADSSLEALYD--RMLIRLWLDKVQDKANFRSMLTSQ  193 (498)
T ss_pred             EEECCCCcccCCchHHhHh--hEEEEEECCCCCchHHHHHHHHcc
Confidence            55666432   23358888  998899999997 46667787653

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.03  E-value=1.3e-09  Score=109.46  Aligned_cols=135  Identities=29%  Similarity=0.415  Sum_probs=94.2

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc-ccccch-HHHHHHHHHHHH----hcCCcEEEEccccccccc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVGES-EALLRNTFQRAR----LAAPSIIFFDEADVVGAK  398 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~-~~~g~~-~~~~~~~~~~a~----~~~p~il~iDeid~l~~~  398 (611)
                      .++||.||+|+|||.||+-+|..++.||...++..+.. .|+|+. |..+.+++..|.    ..+..|+||||+|.|..+
T Consensus       227 SNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~~  306 (564)
T KOG0745|consen  227 SNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITKK  306 (564)
T ss_pred             ccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhccc
Confidence            57999999999999999999999999999999999875 699985 456677766542    234459999999999855


Q ss_pred             CCCCCCCCcchhHHHHHHHHHHhcCC-----------CCCCCeEEEEecC-------CCcccchhccCCCCcc-ceeecC
Q 007255          399 RGGSSSTSITVGERLLSTLLTEMDGL-----------EQAKGILVLAATN-------RPHAIDAALMRPGRFD-LVLYVP  459 (611)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~ll~~l~~~-----------~~~~~~~vI~~tn-------~~~~ld~al~r~gRf~-~~i~~~  459 (611)
                      ..+-+...+-...-++..||+.++|.           .+.+..+.|-|||       .-..||.-+-|  |.+ ..+-|.
T Consensus       307 ~~~i~~~RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnILFiasGAF~~Ldk~I~r--R~~d~slGFg  384 (564)
T KOG0745|consen  307 AESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNILFIASGAFVGLDKIISR--RLDDKSLGFG  384 (564)
T ss_pred             CccccccccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceEEEecccccchHHHHHH--hhcchhcccC
Confidence            33222222233456889999999873           1122233333333       33456666666  654 566677


Q ss_pred             CC
Q 007255          460 PP  461 (611)
Q Consensus       460 ~p  461 (611)
                      .|
T Consensus       385 ~~  386 (564)
T KOG0745|consen  385 AP  386 (564)
T ss_pred             CC
Confidence            66

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.01  E-value=7.5e-09  Score=105.50  Aligned_cols=137  Identities=20%  Similarity=0.315  Sum_probs=100.4

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCcE-------------------------EEEccccccc--------------
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHL-------------------------TVISPHSVHK--------------   91 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~-------------------------~~v~~~~~~~--------------   91 (611)
                      +.+..+||+||+|+||+++|+.+|+.+.+.-                         ..+.+.....              
T Consensus        19 rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~~~~~~~~~~~~~~   98 (342)
T PRK06964         19 RLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAEAPGAADEAKEADA   98 (342)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccccccccccccchh
Confidence            5678999999999999999999999885531                         1111110000              


Q ss_pred             --cc-------ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCc
Q 007255           92 --AH-------VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPH  162 (611)
Q Consensus        92 --~~-------~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~  162 (611)
                        ..       ..-....++.+.+.....+..+...|++||++|.|..          ...+.|++.+++      ++++
T Consensus        99 ~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~----------~AaNaLLKtLEE------Pp~~  162 (342)
T PRK06964         99 DEGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGARVVVLYPAEALNV----------AAANALLKTLEE------PPPG  162 (342)
T ss_pred             hcccccccccccccCHHHHHHHHHHhccCCccCCceEEEEechhhcCH----------HHHHHHHHHhcC------CCcC
Confidence              00       0112345666665555444445567999999999854          678999999996      4557


Q ss_pred             EEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHh
Q 007255          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLY  206 (611)
Q Consensus       163 v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~  206 (611)
                      +++|.+|+.++.+.|.++|  |+ ..+.|++|+.++..+.+...
T Consensus       163 t~fiL~t~~~~~LLpTI~S--Rc-q~i~~~~~~~~~~~~~L~~~  203 (342)
T PRK06964        163 TVFLLVSARIDRLLPTILS--RC-RQFPMTVPAPEAAAAWLAAQ  203 (342)
T ss_pred             cEEEEEECChhhCcHHHHh--cC-EEEEecCCCHHHHHHHHHHc
Confidence            8899999999999999999  98 48999999999999888764

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.01  E-value=4.3e-09  Score=115.98  Aligned_cols=234  Identities=19%  Similarity=0.203  Sum_probs=137.9

Q ss_pred             cccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE-----Eee
Q 007255          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF-----FSL  355 (611)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~-----~~~  355 (611)
                      .+..|..-+++++|++++++.+...+..               .++++|+||||||||++++++|..++...     +..
T Consensus         9 ~~~~~~~~~~~viG~~~a~~~l~~a~~~---------------~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~   73 (608)
T TIGR00764         9 EIPVPERLIDQVIGQEEAVEIIKKAAKQ---------------KRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYP   73 (608)
T ss_pred             ccCcchhhHhhccCHHHHHHHHHHHHHc---------------CCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEe
Confidence            3456777899999999999988887763               24799999999999999999999997652     233


Q ss_pred             cch----hh-ccccccchHHHHHHHHHHHHhcCCc---------------------------------------------
Q 007255          356 SGA----EL-YSMYVGESEALLRNTFQRARLAAPS---------------------------------------------  385 (611)
Q Consensus       356 ~~~----~~-~~~~~g~~~~~~~~~~~~a~~~~p~---------------------------------------------  385 (611)
                      ++.    ++ ...+.|..++.++..|..++...|+                                             
T Consensus        74 n~~~~~~~~~~~v~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (608)
T TIGR00764        74 NPEDPNMPRIVEVPAGEGREIVEDYKKKAFKQPSSRNLLLFMIGFIVLSEYFLKNLPPNYLLAAVIAAALILLIFGFFIP  153 (608)
T ss_pred             CCCCCchHHHHHHHHhhchHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhcc
Confidence            331    11 1223344444444444444322221                                             


Q ss_pred             --------------------EEEEcccc--cccccCC---------C-CCCC--------------------CcchhHHH
Q 007255          386 --------------------IIFFDEAD--VVGAKRG---------G-SSST--------------------SITVGERL  413 (611)
Q Consensus       386 --------------------il~iDeid--~l~~~~~---------~-~~~~--------------------~~~~~~~~  413 (611)
                                          +++.+...  .|++...         . ..+.                    -.......
T Consensus       154 ~~~~~~~n~lv~~s~~~~~P~v~~~~~~~~~L~G~i~~~~~~g~~g~~~~~~~~i~~G~L~~AngGtL~Ldei~~L~~~~  233 (608)
T TIGR00764       154 RTSIMVPKLLVDNSGKKKAPFVDATGAHAGALLGDVRHDPFQGSGGLGTPAHERVEAGAIHRAHKGVLYIDEIKTMPLEV  233 (608)
T ss_pred             cchhceeeeeecCCCCCCCCEEEeCCCChHHCccceeeccccCccccccCccccCCCCceEECCCCEEEEEChHhCCHHH
Confidence                                33322221  2333210         0 0000                    00222356


Q ss_pred             HHHHHHHhcCCC-------------------CCCCeEEEEecCCC--cccchhccCCCCcc---ceeecCC---CCHHHH
Q 007255          414 LSTLLTEMDGLE-------------------QAKGILVLAATNRP--HAIDAALMRPGRFD---LVLYVPP---PDLEAR  466 (611)
Q Consensus       414 ~~~ll~~l~~~~-------------------~~~~~~vI~~tn~~--~~ld~al~r~gRf~---~~i~~~~---p~~~~r  466 (611)
                      ...|+..|+.-.                   -+-++.+|+++|..  ..+|++|+.  ||+   ..++|+.   ++.+.|
T Consensus       234 q~~Ll~~L~~~~i~~~g~~e~~~~~~~~~~~ip~dvrvIa~~~~~~l~~l~~~l~~--rf~~y~v~v~~~~~~~~~~e~~  311 (608)
T TIGR00764       234 QQYLLTALQDKKFPITGQSENSSGAMVRTEPVPCDFILVASGNLDDLEGMHPALRS--RIRGYGYEVYMKDTMPDTPENR  311 (608)
T ss_pred             HHHHHHHHHhCcEEecCccccccccccCCCCCccceEEEEECCHHHHhhcCHHHHH--HhcCCeEEEEeeccCCCCHHHH
Confidence            667777664211                   12257889888864  478999998  998   6666653   356667


Q ss_pred             HHHHHHHh---cCC---CCCCcccHHHHHH----hCC-----CCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHh
Q 007255          467 HEILRVHT---RNM---KVGDDVDLRSIAE----ETE-----LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKD  531 (611)
Q Consensus       467 ~~il~~~~---~~~---~~~~~~~~~~la~----~~~-----g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~  531 (611)
                      .++.+...   +..   +..++..+..+.+    .+.     -.+.+++.+++++|...|..+  ....|+.+|+..|++
T Consensus       312 ~~~~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~--~~~~I~~ehV~~Ai~  389 (608)
T TIGR00764       312 DKLVQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSS--GKVYVTAEHVLKAKK  389 (608)
T ss_pred             HHHHHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhc--CCceecHHHHHHHHH
Confidence            66665332   222   2122333333332    111     135699999999997766555  356799999999986


Q ss_pred             hc
Q 007255          532 SL  533 (611)
Q Consensus       532 ~~  533 (611)
                      ..
T Consensus       390 ~~  391 (608)
T TIGR00764       390 LA  391 (608)
T ss_pred             HH
Confidence            44

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.00  E-value=1.4e-09  Score=111.41  Aligned_cols=203  Identities=19%  Similarity=0.231  Sum_probs=122.7

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHH----hCCcEEEEccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRE----CGAHLTVISPHSVHK   91 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~----l~~~~~~v~~~~~~~   91 (611)
                      ..+.+++|.....+++.+.+.. +          .....++|+.|++||||+.+|+.+...    .+.+|+.+||..+..
T Consensus        75 ~~~~~LIG~~~~~~~~~eqik~-~----------ap~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~e  143 (403)
T COG1221          75 EALDDLIGESPSLQELREQIKA-Y----------APSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSE  143 (403)
T ss_pred             hhhhhhhccCHHHHHHHHHHHh-h----------CCCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhCc
Confidence            4678899999998888887754 1          123479999999999999999998643    367899999987754


Q ss_pred             ccccc------------hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCC-----
Q 007255           92 AHVGE------------SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK-----  154 (611)
Q Consensus        92 ~~~~~------------~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~-----  154 (611)
                      .....            ....-..+|+.+       .++.||+|||+.|.+          ..+..|+..++...     
T Consensus       144 n~~~~eLFG~~kGaftGa~~~k~Glfe~A-------~GGtLfLDEI~~LP~----------~~Q~kLl~~le~g~~~rvG  206 (403)
T COG1221         144 NLQEAELFGHEKGAFTGAQGGKAGLFEQA-------NGGTLFLDEIHRLPP----------EGQEKLLRVLEEGEYRRVG  206 (403)
T ss_pred             CHHHHHHhccccceeecccCCcCchheec-------CCCEEehhhhhhCCH----------hHHHHHHHHHHcCceEecC
Confidence            32210            011111223332       367999999999977          66889999998732     


Q ss_pred             CCCCCCCcEEEEEeecCc--ccccH--HhhccCCcceEEEccCCCHH--HHHHHHHHhh----cCCCCCCcccHHHHHHh
Q 007255          155 PSKTSVPHVVVVASTNRV--DAIDP--ALRRSGRFDAEVEVTVPTAE--ERFEILKLYT----KKVPLDANVDLEAIATS  224 (611)
Q Consensus       155 ~~~~~~~~v~ii~ttn~~--~~l~~--~l~~~~Rf~~~i~~~~p~~~--~r~~Il~~~~----~~~~~~~~~~~~~la~~  224 (611)
                      .......+|.+|++|+..  +.+-.  .+.+. ++...|.+|+....  ++..++.+++    .+...............
T Consensus       207 ~~~~~~~dVRli~AT~~~l~~~~~~g~dl~~r-l~~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~  285 (403)
T COG1221         207 GSQPRPVDVRLICATTEDLEEAVLAGADLTRR-LNILTITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRA  285 (403)
T ss_pred             CCCCcCCCceeeeccccCHHHHHHhhcchhhh-hcCceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHH
Confidence            222344578899988752  22222  33321 34445555554332  2222333433    33433322222222222


Q ss_pred             ccCC----ccccHHHHHHHHHHHHhhh
Q 007255          225 CNGY----VGADLEALCREATMSAVKR  247 (611)
Q Consensus       225 ~~g~----~~~dl~~l~~~a~~~a~~r  247 (611)
                      ...|    +-+++++++..++..+...
T Consensus       286 L~~y~~pGNirELkN~Ve~~~~~~~~~  312 (403)
T COG1221         286 LLAYDWPGNIRELKNLVERAVAQASGE  312 (403)
T ss_pred             HHhCCCCCcHHHHHHHHHHHHHHhccc
Confidence            2222    3467889998888776543

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.00  E-value=6e-09  Score=114.01  Aligned_cols=200  Identities=13%  Similarity=0.223  Sum_probs=115.4

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE-Eccc---cccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV-ISPH---SVHK   91 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~-v~~~---~~~~   91 (611)
                      +.+++++|+++.++.|..++....        .+..+...++|+||||||||++++.+|++++..+.. +++.   ....
T Consensus        81 ~~ldel~~~~~ki~~l~~~l~~~~--------~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~npv~~~~~~~  152 (637)
T TIGR00602        81 ETQHELAVHKKKIEEVETWLKAQV--------LENAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQKN  152 (637)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhcc--------cccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHhhhhhhccccc
Confidence            889999999999999998875421        122334569999999999999999999998865433 1111   0000


Q ss_pred             c------------cccchHHHHHHHHHHHHhhh------hcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHH-HHhc
Q 007255           92 A------------HVGESEKALREAFSQASSHA------LSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFT-LMDS  152 (611)
Q Consensus        92 ~------------~~~~~~~~l~~~f~~~~~~~------~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~-~l~~  152 (611)
                      .            ........+..++..+....      ...+..||+|||++.++...       ...+..++. ....
T Consensus       153 ~~~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r~-------~~~lq~lLr~~~~e  225 (637)
T TIGR00602       153 DHKVTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYRD-------TRALHEILRWKYVS  225 (637)
T ss_pred             ccccchhhhhccccccchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchhh-------HHHHHHHHHHHhhc
Confidence            0            00122234444444443211      12356799999999876421       123444444 2222


Q ss_pred             CCCCCCCCCcEEEEEeecCc------c-------cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCC--C----
Q 007255          153 NKPSKTSVPHVVVVASTNRV------D-------AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPL--D----  213 (611)
Q Consensus       153 ~~~~~~~~~~v~ii~ttn~~------~-------~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~--~----  213 (611)
                         .  ....+++|.+-++.      +       .+.+++++..|. .+|.|++.+.....+.|+..+.....  .    
T Consensus       226 ---~--~~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv-~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~  299 (637)
T TIGR00602       226 ---I--GRCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRV-SNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIK  299 (637)
T ss_pred             ---C--CCceEEEEecCCccccccccccccchhcccCHhHhcccce-eEEEeCCCCHHHHHHHHHHHHHhhhhccccccc
Confidence               1  11123333332221      1       134788764455 37999999999988888777654211  1    


Q ss_pred             --CcccHHHHHHhccCCccccHHHHHHHH
Q 007255          214 --ANVDLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       214 --~~~~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                        ....+..++..+.    +|++..+...
T Consensus       300 ~p~~~~l~~I~~~s~----GDiRsAIn~L  324 (637)
T TIGR00602       300 VPKKTSVELLCQGCS----GDIRSAINSL  324 (637)
T ss_pred             cCCHHHHHHHHHhCC----ChHHHHHHHH
Confidence              1224566666444    4555554433

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=99.00  E-value=9.6e-09  Score=98.12  Aligned_cols=101  Identities=22%  Similarity=0.324  Sum_probs=65.9

Q ss_pred             CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCC-------------CcccchhccCC
Q 007255          383 APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR-------------PHAIDAALMRP  449 (611)
Q Consensus       383 ~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~-------------~~~ld~al~r~  449 (611)
                      -|.|+||||+|.|              .-+.+..|-+.++   ++=.-+||++||+             |+-+++.++. 
T Consensus       296 vPGVLFIDEVhML--------------DiEcFTyL~kalE---S~iaPivifAsNrG~~~irGt~d~~sPhGip~dllD-  357 (456)
T KOG1942|consen  296 VPGVLFIDEVHML--------------DIECFTYLHKALE---SPIAPIVIFASNRGMCTIRGTEDILSPHGIPPDLLD-  357 (456)
T ss_pred             cCcceEeeehhhh--------------hhHHHHHHHHHhc---CCCCceEEEecCCcceeecCCcCCCCCCCCCHHHhh-
Confidence            3778889999877              2356666666665   3333467777774             5567788887 


Q ss_pred             CCccceeecCCCCHHHHHHHHHHHhcCCCCCC-cccHHHHHHhCCCCCHHHHHHH
Q 007255          450 GRFDLVLYVPPPDLEARHEILRVHTRNMKVGD-DVDLRSIAEETELFTGAELEGL  503 (611)
Q Consensus       450 gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~-~~~~~~la~~~~g~s~~~i~~~  503 (611)
                       |+- +|..-+++.++..+|++...+-..+.- +..+..|+.....-|-+...++
T Consensus       358 -Rl~-Iirt~~y~~~e~r~Ii~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqL  410 (456)
T KOG1942|consen  358 -RLL-IIRTLPYDEEEIRQIIKIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQL  410 (456)
T ss_pred             -hee-EEeeccCCHHHHHHHHHHHHhhhcceecHHHHHHHHhhccchhHHHHHHh
Confidence             775 677778888999999997776555543 3446667766443333333333

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=99.00  E-value=6.9e-09  Score=105.27  Aligned_cols=168  Identities=23%  Similarity=0.298  Sum_probs=112.4

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccc--------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH--------   87 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~--------   87 (611)
                      -.|..++|++..+..|--.-..|             .-.++|+-|+.||||||++|+++.-|...-+...|.        
T Consensus        14 ~pf~aivGqd~lk~aL~l~av~P-------------~iggvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~cdP~~P   80 (423)
T COG1239          14 LPFTAIVGQDPLKLALGLNAVDP-------------QIGGALIAGEKGTAKSTLARALADLLPEIEVVIGCPFNCDPDDP   80 (423)
T ss_pred             cchhhhcCchHHHHHHhhhhccc-------------ccceeEEecCCCccHHHHHHHHHHhCCccceecCCCCCCCCCCh
Confidence            46789999999998875432221             226899999999999999999999885432222220        


Q ss_pred             ------------------------ccccccccchHHHH------HHHHHHHH-----hhhhcCCCeEEEEccccccCCCC
Q 007255           88 ------------------------SVHKAHVGESEKAL------REAFSQAS-----SHALSGKPSVVFIDEIDALCPRR  132 (611)
Q Consensus        88 ------------------------~~~~~~~~~~~~~l------~~~f~~~~-----~~~~~~~~~il~IDeid~l~~~~  132 (611)
                                              .+.....+.++..+      .++.+.-.     ......+.+||+|||++.|..  
T Consensus        81 ~~~c~~c~~k~~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~d--  158 (423)
T COG1239          81 EEMCDECRAKGDELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLDD--  158 (423)
T ss_pred             hhhhHHHHhhccccccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccccH--
Confidence                                    01111223333311      11111100     001123457999999988854  


Q ss_pred             CCCchhhHHHHHHHHHHHhcCC-------CCCCCCCcEEEEEeecCcc-cccHHhhccCCcceEEEccCC-CHHHHHHHH
Q 007255          133 DHRREQDVRIASQLFTLMDSNK-------PSKTSVPHVVVVASTNRVD-AIDPALRRSGRFDAEVEVTVP-TAEERFEIL  203 (611)
Q Consensus       133 ~~~~~~~~~~~~~ll~~l~~~~-------~~~~~~~~v~ii~ttn~~~-~l~~~l~~~~Rf~~~i~~~~p-~~~~r~~Il  203 (611)
                              .++..|++.+....       .....+.++++|+|+|+.+ .|-|.|+.  ||...+.+..| +.++|.+|+
T Consensus       159 --------~lvd~LLd~aaeG~n~vereGisi~hpa~fvligTmNPEeGeLrpqLlD--Rfg~~v~~~~~~~~~~rv~Ii  228 (423)
T COG1239         159 --------HLVDALLDVAAEGVNDVEREGISIRHPARFLLIGTMNPEEGELRPQLLD--RFGLEVDTHYPLDLEERVEII  228 (423)
T ss_pred             --------HHHHHHHHHHHhCCceeeeCceeeccCccEEEEeecCccccccchhhHh--hhcceeeccCCCCHHHHHHHH
Confidence                    78899999887631       1223467899999999965 89999998  99999988776 788999998


Q ss_pred             HHhhc
Q 007255          204 KLYTK  208 (611)
Q Consensus       204 ~~~~~  208 (611)
                      .....
T Consensus       229 ~r~~~  233 (423)
T COG1239         229 RRRLA  233 (423)
T ss_pred             HHHHH
Confidence            87654

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=99.00  E-value=4.8e-10  Score=115.06  Aligned_cols=48  Identities=31%  Similarity=0.413  Sum_probs=41.5

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      ...|.||.|++..|+.+......               .+++|++||||||||++|+-+...+
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAAAG---------------gHnLl~~GpPGtGKTmla~Rl~~lL  222 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAAAG---------------GHNLLLVGPPGTGKTMLASRLPGLL  222 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHHhc---------------CCcEEEecCCCCchHHhhhhhcccC
Confidence            34789999999999999988763               4789999999999999999987654

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.99  E-value=9.6e-09  Score=105.06  Aligned_cols=157  Identities=20%  Similarity=0.228  Sum_probs=111.3

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCc------------------------EEEEcccccccccccchHHHHHHHHH
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAH------------------------LTVISPHSVHKAHVGESEKALREAFS  106 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~------------------------~~~v~~~~~~~~~~~~~~~~l~~~f~  106 (611)
                      +.+..+||+||+|+||+++|.++|+.+.+.                        +..+.+..   ....-....++.+.+
T Consensus        22 rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~---~~~~I~idqiR~l~~   98 (334)
T PRK07993         22 RGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEK---GKSSLGVDAVREVTE   98 (334)
T ss_pred             CcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEeccc---ccccCCHHHHHHHHH
Confidence            456789999999999999999999988431                        11111110   001123456666666


Q ss_pred             HHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcc
Q 007255          107 QASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFD  186 (611)
Q Consensus       107 ~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~  186 (611)
                      .....+..+...|++||++|.|..          ...+.|++.+++      +++++++|..|+.++.+.|.++|  |+.
T Consensus        99 ~~~~~~~~g~~kV~iI~~ae~m~~----------~AaNaLLKtLEE------Pp~~t~fiL~t~~~~~lLpTIrS--RCq  160 (334)
T PRK07993         99 KLYEHARLGGAKVVWLPDAALLTD----------AAANALLKTLEE------PPENTWFFLACREPARLLATLRS--RCR  160 (334)
T ss_pred             HHhhccccCCceEEEEcchHhhCH----------HHHHHHHHHhcC------CCCCeEEEEEECChhhChHHHHh--ccc
Confidence            666555556677999999999854          678999999997      55578999999999999999999  886


Q ss_pred             eEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccH
Q 007255          187 AEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADL  233 (611)
Q Consensus       187 ~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl  233 (611)
                       .+.|++|+.++..+.+....   +.+. .....++..++|-.+..+
T Consensus       161 -~~~~~~~~~~~~~~~L~~~~---~~~~-~~a~~~~~la~G~~~~Al  202 (334)
T PRK07993        161 -LHYLAPPPEQYALTWLSREV---TMSQ-DALLAALRLSAGAPGAAL  202 (334)
T ss_pred             -cccCCCCCHHHHHHHHHHcc---CCCH-HHHHHHHHHcCCCHHHHH
Confidence             78999999999888776431   2222 224455666666555433

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=98.99  E-value=1.8e-08  Score=101.65  Aligned_cols=149  Identities=19%  Similarity=0.229  Sum_probs=107.2

Q ss_pred             CcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc----------------------
Q 007255           23 GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH----------------------   80 (611)
Q Consensus        23 G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~----------------------   80 (611)
                      .+....+.|...+..            -+.+..+||+||.|+||+++|+.+|+.+.+.                      
T Consensus         7 Wl~~~~~~l~~~~~~------------~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HP   74 (319)
T PRK06090          7 WLVPVWQNWKAGLDA------------GRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHP   74 (319)
T ss_pred             cHHHHHHHHHHHHHc------------CCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCC
Confidence            356667777666533            2456789999999999999999999987432                      


Q ss_pred             -EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCC
Q 007255           81 -LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS  159 (611)
Q Consensus        81 -~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  159 (611)
                       +..+.+..-   ...-....++.+-+.....+..+...|++||++|.|..          ...+.|++.+++      +
T Consensus        75 D~~~i~p~~~---~~~I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~----------~AaNaLLKtLEE------P  135 (319)
T PRK06090         75 DLHVIKPEKE---GKSITVEQIRQCNRLAQESSQLNGYRLFVIEPADAMNE----------SASNALLKTLEE------P  135 (319)
T ss_pred             CEEEEecCcC---CCcCCHHHHHHHHHHHhhCcccCCceEEEecchhhhCH----------HHHHHHHHHhcC------C
Confidence             122211100   00112345555555544444444567999999999854          668999999997      4


Q ss_pred             CCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHH
Q 007255          160 VPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKL  205 (611)
Q Consensus       160 ~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~  205 (611)
                      +.++++|..|+.++.+-|.++|  |+. .+.|++|+.++..+.+..
T Consensus       136 p~~t~fiL~t~~~~~lLpTI~S--RCq-~~~~~~~~~~~~~~~L~~  178 (319)
T PRK06090        136 APNCLFLLVTHNQKRLLPTIVS--RCQ-QWVVTPPSTAQAMQWLKG  178 (319)
T ss_pred             CCCeEEEEEECChhhChHHHHh--cce-eEeCCCCCHHHHHHHHHH
Confidence            5578899999999999999999  985 899999999998888765

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=98.97  E-value=1.8e-09  Score=99.33  Aligned_cols=134  Identities=25%  Similarity=0.404  Sum_probs=83.9

Q ss_pred             cCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccc---
Q 007255           21 IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV---   94 (611)
Q Consensus        21 i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~---   94 (611)
                      |+|.....+.+.+.+...           ...+.+|||+|++||||+.+|+++.+..   +.+|+.++|+.+.....   
T Consensus         1 liG~s~~m~~~~~~~~~~-----------a~~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~   69 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRA-----------ASSDLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESE   69 (168)
T ss_dssp             SS--SHHHHHHHHHHHHH-----------TTSTS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHH
T ss_pred             CEeCCHHHHHHHHHHHHH-----------hCCCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhh
Confidence            567777878777766542           1345899999999999999999998865   46899999987643211   


Q ss_pred             --cch-------HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCC
Q 007255           95 --GES-------EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSV  160 (611)
Q Consensus        95 --~~~-------~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~~~  160 (611)
                        |..       ...-...++.+       ..+.||||||+.|.+          .++..|++.++.....     ....
T Consensus        70 LFG~~~~~~~~~~~~~~G~l~~A-------~~GtL~Ld~I~~L~~----------~~Q~~Ll~~l~~~~~~~~g~~~~~~  132 (168)
T PF00158_consen   70 LFGHEKGAFTGARSDKKGLLEQA-------NGGTLFLDEIEDLPP----------ELQAKLLRVLEEGKFTRLGSDKPVP  132 (168)
T ss_dssp             HHEBCSSSSTTTSSEBEHHHHHT-------TTSEEEEETGGGS-H----------HHHHHHHHHHHHSEEECCTSSSEEE
T ss_pred             hhccccccccccccccCCceeec-------cceEEeecchhhhHH----------HHHHHHHHHHhhchhcccccccccc
Confidence              100       00011333333       367999999999865          7889999999864321     1123


Q ss_pred             CcEEEEEeecCcccccHHhhccCCc
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRF  185 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf  185 (611)
                      .++.+|++|+..  +...+. .|+|
T Consensus       133 ~~~RiI~st~~~--l~~~v~-~g~f  154 (168)
T PF00158_consen  133 VDVRIIASTSKD--LEELVE-QGRF  154 (168)
T ss_dssp             --EEEEEEESS---HHHHHH-TTSS
T ss_pred             ccceEEeecCcC--HHHHHH-cCCC
Confidence            478999999863  334333 3455

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=98.97  E-value=2.6e-08  Score=97.96  Aligned_cols=188  Identities=18%  Similarity=0.197  Sum_probs=113.6

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---------CCcEEeecchhhcc--------------cc--ccchHHHHHHHHHH
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---------EASFFSLSGAELYS--------------MY--VGESEALLRNTFQR  378 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---------~~~~~~~~~~~~~~--------------~~--~g~~~~~~~~~~~~  378 (611)
                      ..++||+|++|.|||++++.++..-         .++++.+.+..--+              .+  .......-.++...
T Consensus        61 mp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~l  140 (302)
T PF05621_consen   61 MPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYRPRDRVAKLEQQVLRL  140 (302)
T ss_pred             CCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccCCCCCHHHHHHHHHHH
Confidence            3579999999999999999998654         24566555422111              11  11123334455566


Q ss_pred             HHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecC--CCc--ccchhccCCCCccc
Q 007255          379 ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATN--RPH--AIDAALMRPGRFDL  454 (611)
Q Consensus       379 a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn--~~~--~ld~al~r~gRf~~  454 (611)
                      .+..++.+|+|||+|.+....           .+-..++++.++.+...-++-+|+..+  -..  .-|+.+.+  ||+ 
T Consensus       141 lr~~~vrmLIIDE~H~lLaGs-----------~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QLa~--RF~-  206 (302)
T PF05621_consen  141 LRRLGVRMLIIDEFHNLLAGS-----------YRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQLAS--RFE-  206 (302)
T ss_pred             HHHcCCcEEEeechHHHhccc-----------HHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHHHh--ccC-
Confidence            677888899999999875221           111233333333333333444444332  222  34778887  998 


Q ss_pred             eeecCCCCH-HHHHHHHHHHhcCCCCCCc-----cc-HHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHH
Q 007255          455 VLYVPPPDL-EARHEILRVHTRNMKVGDD-----VD-LRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQ  527 (611)
Q Consensus       455 ~i~~~~p~~-~~r~~il~~~~~~~~~~~~-----~~-~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~  527 (611)
                      .+.+|.-.. ++-..++..+.+..++...     .+ ...+-..++|. -+++..++..|+..|++..  ...|+.+.+.
T Consensus       207 ~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~-iG~l~~ll~~aA~~AI~sG--~E~It~~~l~  283 (302)
T PF05621_consen  207 PFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGL-IGELSRLLNAAAIAAIRSG--EERITREILD  283 (302)
T ss_pred             CccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCc-hHHHHHHHHHHHHHHHhcC--CceecHHHHh
Confidence            555554333 3455667766655555422     22 25666788885 4679999999999999875  4556665554


Q ss_pred             H
Q 007255          528 T  528 (611)
Q Consensus       528 ~  528 (611)
                      .
T Consensus       284 ~  284 (302)
T PF05621_consen  284 K  284 (302)
T ss_pred             h
Confidence            3

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.97  E-value=4.3e-09  Score=107.79  Aligned_cols=195  Identities=14%  Similarity=0.175  Sum_probs=111.4

Q ss_pred             cCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccch
Q 007255           21 IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGES   97 (611)
Q Consensus        21 i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~   97 (611)
                      ++|.....+.+.+.+...           .....+|||+|++||||+++|+++....   +.+|+.++|..+.....   
T Consensus         1 liG~S~~m~~~~~~~~~~-----------a~~~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~~l---   66 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRL-----------APLDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLL---   66 (329)
T ss_pred             CCcCCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChHHH---
Confidence            456666667666665432           1245799999999999999999997755   46899999987642211   


Q ss_pred             HHHHHHHHHHH-------H----hhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCC
Q 007255           98 EKALREAFSQA-------S----SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVP  161 (611)
Q Consensus        98 ~~~l~~~f~~~-------~----~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~~~~  161 (611)
                      +   ..+|...       .    .......++.|||||++.|..          ..+..|+..++.....     .....
T Consensus        67 ~---~~lfG~~~g~~~ga~~~~~G~~~~a~gGtL~Ldei~~L~~----------~~Q~~Ll~~l~~~~~~~~g~~~~~~~  133 (329)
T TIGR02974        67 D---SELFGHEAGAFTGAQKRHQGRFERADGGTLFLDELATASL----------LVQEKLLRVIEYGEFERVGGSQTLQV  133 (329)
T ss_pred             H---HHHhccccccccCcccccCCchhhCCCCEEEeCChHhCCH----------HHHHHHHHHHHcCcEEecCCCceecc
Confidence            0   1112110       0    001122467999999998855          6788888888764311     11234


Q ss_pred             cEEEEEeecCc-------ccccHHhhccCCcc-eEEEccCCC--HHHHHHHHHHhhcCC----CCC--Cccc---HHHHH
Q 007255          162 HVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPT--AEERFEILKLYTKKV----PLD--ANVD---LEAIA  222 (611)
Q Consensus       162 ~v~ii~ttn~~-------~~l~~~l~~~~Rf~-~~i~~~~p~--~~~r~~Il~~~~~~~----~~~--~~~~---~~~la  222 (611)
                      ++.+|++|+..       ..+.+.|..  |+. ..|.+|+..  .++...++++++...    ...  ....   +..+.
T Consensus       134 ~~RiI~at~~~l~~~~~~g~fr~dL~~--rl~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~ls~~a~~~L~  211 (329)
T TIGR02974       134 DVRLVCATNADLPALAAEGRFRADLLD--RLAFDVITLPPLRERQEDIMLLAEHFAIRMARELGLPLFPGFTPQAREQLL  211 (329)
T ss_pred             ceEEEEechhhHHHHhhcCchHHHHHH--HhcchhcCCCchhhhhhhHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHH
Confidence            57889988763       244566665  664 234444443  234444555544321    111  1112   22222


Q ss_pred             HhccCCccccHHHHHHHHHHHH
Q 007255          223 TSCNGYVGADLEALCREATMSA  244 (611)
Q Consensus       223 ~~~~g~~~~dl~~l~~~a~~~a  244 (611)
                      ...=-.+-++|++++..++..+
T Consensus       212 ~y~WPGNvrEL~n~i~~~~~~~  233 (329)
T TIGR02974       212 EYHWPGNVRELKNVVERSVYRH  233 (329)
T ss_pred             hCCCCchHHHHHHHHHHHHHhC
Confidence            2111123467777777766543

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>TIGR00368 Mg chelatase-related protein

Probab=98.97  E-value=2.8e-09  Score=114.32  Aligned_cols=172  Identities=23%  Similarity=0.258  Sum_probs=105.6

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC-----------------
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE-----------------  349 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~-----------------  349 (611)
                      ..|+++.|++.+++.+...+.               ..++++|+||||||||+++++++..+.                 
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa~---------------~g~~vlliG~pGsGKTtlar~l~~llp~~~~~~~le~~~i~s~~  253 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAAA---------------GGHNLLLFGPPGSGKTMLASRLQGILPPLTNEEAIETARIWSLV  253 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhcc---------------CCCEEEEEecCCCCHHHHHHHHhcccCCCCCcEEEeccccccch
Confidence            378999999998777665443               236799999999999999999997541                 


Q ss_pred             -----------CcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHH
Q 007255          350 -----------ASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (611)
Q Consensus       350 -----------~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll  418 (611)
                                 .+|...+.+.......|.....-...+.   ..+..+|||||++.+              ...++..|+
T Consensus       254 g~~~~~~~~~~~Pf~~p~~s~s~~~~~ggg~~~~pG~i~---lA~~GvLfLDEi~e~--------------~~~~~~~L~  316 (499)
T TIGR00368       254 GKLIDRKQIKQRPFRSPHHSASKPALVGGGPIPLPGEIS---LAHNGVLFLDELPEF--------------KRSVLDALR  316 (499)
T ss_pred             hhhccccccccCCccccccccchhhhhCCccccchhhhh---ccCCCeEecCChhhC--------------CHHHHHHHH
Confidence                       1111111111100011111000011122   234459999999876              246677777


Q ss_pred             HHhcCCC-----------CCCCeEEEEecCCC------c-----------------ccchhccCCCCccceeecCCCCHH
Q 007255          419 TEMDGLE-----------QAKGILVLAATNRP------H-----------------AIDAALMRPGRFDLVLYVPPPDLE  464 (611)
Q Consensus       419 ~~l~~~~-----------~~~~~~vI~~tn~~------~-----------------~ld~al~r~gRf~~~i~~~~p~~~  464 (611)
                      ..|+.-.           ...++.+|+++|.-      +                 .+..+++.  |||.++.++.++.+
T Consensus       317 ~~LE~~~v~i~r~g~~~~~pa~frlIaa~Npcpcg~~~~~~~~c~c~~~~~~~y~~~is~pllD--R~dl~~~~~~~~~~  394 (499)
T TIGR00368       317 EPIEDGSISISRASAKIFYPARFQLVAAMNPCPCGHYGGKNTHCRCSPQQISRYWNKLSGPFLD--RIDLSVEVPLLPPE  394 (499)
T ss_pred             HHHHcCcEEEEecCcceeccCCeEEEEecCCcccCcCCCCcccccCCHHHHHHHhhhccHhHHh--hCCEEEEEcCCCHH
Confidence            7775321           12468899999852      1                 47778888  99999999887765


Q ss_pred             HHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHh
Q 007255          465 ARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE  514 (611)
Q Consensus       465 ~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~  514 (611)
                      +                      +.....+-+.++++.-+.+|......|
T Consensus       395 ~----------------------l~~~~~~e~s~~ir~rV~~Ar~~q~~R  422 (499)
T TIGR00368       395 K----------------------LLSTGSGESSAEVKQRVIKAREIQNIR  422 (499)
T ss_pred             H----------------------HhccCCCCCHHHHHHHHHHHHHHHHHH
Confidence            2                      111122356777877777776655555

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.96  E-value=2.2e-08  Score=101.47  Aligned_cols=176  Identities=19%  Similarity=0.217  Sum_probs=111.6

Q ss_pred             ccccccc-ccCCcHHHHHHHHHHHHhhhhCchHHHhcCC-CCCceEEEEcCCCCcHHHHHHHHHHHhCC-------cEEE
Q 007255           13 EKWKAEE-AIGGNRAAVEALRELITFPLLYSSQAQKLGL-KWPRGLLLYGPPGTGKTSLVRAVVRECGA-------HLTV   83 (611)
Q Consensus        13 ~~~~~~~-~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~-~~~~~iLl~Gp~GtGKT~la~~la~~l~~-------~~~~   83 (611)
                      ..++-|+ ++.|++++++++.+.+....        .|. .....++|+||||||||++++++++.++.       +++.
T Consensus        44 ~~y~~F~~~~~G~~~~i~~lv~~l~~~a--------~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~  115 (361)
T smart00763       44 KRYRFFDHDFFGMEEAIERFVNYFKSAA--------QGLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYT  115 (361)
T ss_pred             eeccccchhccCcHHHHHHHHHHHHHHH--------hcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEE
Confidence            3456677 99999999999998876532        122 23478899999999999999999999976       7777


Q ss_pred             Ecc----cccccccccchHHHHHHHHHHHHhh-----------------------h------------------------
Q 007255           84 ISP----HSVHKAHVGESEKALREAFSQASSH-----------------------A------------------------  112 (611)
Q Consensus        84 v~~----~~~~~~~~~~~~~~l~~~f~~~~~~-----------------------~------------------------  112 (611)
                      +..    +.+.....+......+..|.+....                       .                        
T Consensus       116 ~~~~~~~sp~~e~Pl~l~p~~~r~~~~~~~~~~~~~~~~~l~p~c~~~l~~e~~gd~~~~~V~~~~~s~~~~~gi~~~~P  195 (361)
T smart00763      116 FKWNGEESPMHEDPLHLFPDELREDLEDEYGIPRRRLEGDLSPWCRKRLDEEYGGDIEKFEVVRVNFSELRRIGIGKFEP  195 (361)
T ss_pred             EEecCCCCCCccCCcccCCHHHHHHHHHHhCCChhhcCCCCCHHHHHHHHHHhCCCcceEEEEEecCCeecceEEEEECC
Confidence            765    3333222222222222222111100                       0                        


Q ss_pred             -------------------------------------hcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCC
Q 007255          113 -------------------------------------LSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP  155 (611)
Q Consensus       113 -------------------------------------~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~  155 (611)
                                                           .....+|+-|+|+.+.          +.+++..|++.+++..-
T Consensus       196 ~D~~~qdi~~L~G~vd~~k~~~~~~~dp~a~~~~G~l~~aNrGi~~f~Ei~K~----------~~~~l~~LL~~~qE~~v  265 (361)
T smart00763      196 KDENNQDISELTGKVDIRKLEIYSESDPRAFSYDGALNRANRGILEFVEMFKA----------DIKFLHPLLTATQEGNI  265 (361)
T ss_pred             CCCCcccHHHHhcccCHHHhcccCCCCCeEEeccCccccccCceEEEeehhcC----------CHHHHHHHhhhhhcceE
Confidence                                                 0011234444444433          34788889999886432


Q ss_pred             CC-----CCCCcEEEEEeecCcc-------cccHHhhccCCcceEEEccCC-CHHHHHHHHHHhhcC
Q 007255          156 SK-----TSVPHVVVVASTNRVD-------AIDPALRRSGRFDAEVEVTVP-TAEERFEILKLYTKK  209 (611)
Q Consensus       156 ~~-----~~~~~v~ii~ttn~~~-------~l~~~l~~~~Rf~~~i~~~~p-~~~~r~~Il~~~~~~  209 (611)
                      ..     .-+-..+||+++|+.+       ...++|++  ||. .+.+|.| +..+-.+|.+..+..
T Consensus       266 ~~~~~~~~~~~d~liia~sNe~e~~~~~~~k~~eaf~d--R~~-~i~vpY~l~~~~E~~Iy~k~~~~  329 (361)
T smart00763      266 KGTGGFAMIPIDGLIIAHSNESEWQRFKSNKKNEALLD--RII-KVKVPYCLRVSEEAQIYEKLLRN  329 (361)
T ss_pred             ecCCcccccccceEEEEeCCHHHHhhhhccccchhhhh--ceE-EEeCCCcCCHHHHHHHHHHHhcc
Confidence            21     1223468899999973       56799998  986 7888887 666777788877654

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.96  E-value=3.5e-09  Score=106.38  Aligned_cols=99  Identities=22%  Similarity=0.443  Sum_probs=79.1

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc-cccccch-HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCC
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH-KAHVGES-EKALREAFSQASSHALSGKPSVVFIDEIDALCPR  131 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~-~~~~~~~-~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~  131 (611)
                      .|+||.||+|+|||.+++.+|+.++.+|...+|.++. ..|.|+- +..+.+++..+.-.....+.+|+||||+|.+...
T Consensus       227 SNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~~  306 (564)
T KOG0745|consen  227 SNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITKK  306 (564)
T ss_pred             ccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhccc
Confidence            5899999999999999999999999999999999876 3466654 4456777777766666677889999999999854


Q ss_pred             CCCC----chhhHHHHHHHHHHHhc
Q 007255          132 RDHR----REQDVRIASQLFTLMDS  152 (611)
Q Consensus       132 ~~~~----~~~~~~~~~~ll~~l~~  152 (611)
                      ..+.    .-....+++.|+.+++.
T Consensus       307 ~~~i~~~RDVsGEGVQQaLLKllEG  331 (564)
T KOG0745|consen  307 AESIHTSRDVSGEGVQQALLKLLEG  331 (564)
T ss_pred             CccccccccccchhHHHHHHHHhcc
Confidence            3321    22345789999999986

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.95  E-value=3.4e-08  Score=93.92  Aligned_cols=179  Identities=15%  Similarity=0.193  Sum_probs=126.3

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-C--Cc-----------
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-E--AS-----------  351 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-~--~~-----------  351 (611)
                      +-+++.+.+.++....+......             ..-.++++|||+|+||.+.+-++-+++ |  .+           
T Consensus         9 pksl~~l~~~~e~~~~Lksl~~~-------------~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~t   75 (351)
T KOG2035|consen    9 PKSLDELIYHEELANLLKSLSST-------------GDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTT   75 (351)
T ss_pred             cchhhhcccHHHHHHHHHHhccc-------------CCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEec
Confidence            34566677777777776665431             111369999999999999999998887 2  11           


Q ss_pred             ---------------EEeecchhhccccccc-hHHHHHHHHHHHHhcCC---------cEEEEcccccccccCCCCCCCC
Q 007255          352 ---------------FFSLSGAELYSMYVGE-SEALLRNTFQRARLAAP---------SIIFFDEADVVGAKRGGSSSTS  406 (611)
Q Consensus       352 ---------------~~~~~~~~~~~~~~g~-~~~~~~~~~~~a~~~~p---------~il~iDeid~l~~~~~~~~~~~  406 (611)
                                     .+++++++     .|. ..-.++.+.+...+.+|         .+++|.|+|.+           
T Consensus        76 pS~kklEistvsS~yHlEitPSD-----aG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~L-----------  139 (351)
T KOG2035|consen   76 PSKKKLEISTVSSNYHLEITPSD-----AGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADEL-----------  139 (351)
T ss_pred             CCCceEEEEEecccceEEeChhh-----cCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhh-----------
Confidence                           12222222     222 23456777777665544         39999999988           


Q ss_pred             cchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcc-cH
Q 007255          407 ITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDV-DL  485 (611)
Q Consensus       407 ~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~-~~  485 (611)
                         .++.+.+|-..|+.  ..+.+.+|.++|..+.+-+++.+  |+- .|.+|.|+.++...++...+.+..+.-.. -+
T Consensus       140 ---T~dAQ~aLRRTMEk--Ys~~~RlIl~cns~SriIepIrS--RCl-~iRvpaps~eeI~~vl~~v~~kE~l~lp~~~l  211 (351)
T KOG2035|consen  140 ---TRDAQHALRRTMEK--YSSNCRLILVCNSTSRIIEPIRS--RCL-FIRVPAPSDEEITSVLSKVLKKEGLQLPKELL  211 (351)
T ss_pred             ---hHHHHHHHHHHHHH--HhcCceEEEEecCcccchhHHhh--hee-EEeCCCCCHHHHHHHHHHHHHHhcccCcHHHH
Confidence               35677888888884  45667888899999999999988  775 89999999999999999888776665443 35


Q ss_pred             HHHHHhCCCCCHHHHHHHHH
Q 007255          486 RSIAEETELFTGAELEGLCR  505 (611)
Q Consensus       486 ~~la~~~~g~s~~~i~~~~~  505 (611)
                      ..+|+.++|    +++.++.
T Consensus       212 ~rIa~kS~~----nLRrAll  227 (351)
T KOG2035|consen  212 KRIAEKSNR----NLRRALL  227 (351)
T ss_pred             HHHHHHhcc----cHHHHHH
Confidence            677887665    5554433

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=98.95  E-value=7.1e-09  Score=106.33  Aligned_cols=198  Identities=13%  Similarity=0.173  Sum_probs=116.9

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH   93 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~   93 (611)
                      .+++++|.....+.+.+.+....           ..+.+|||+|++||||+++|+++....   +.+|+.++|..+....
T Consensus         4 ~~~~liG~S~~~~~~~~~i~~~a-----------~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~~   72 (326)
T PRK11608          4 YKDNLLGEANSFLEVLEQVSRLA-----------PLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENL   72 (326)
T ss_pred             ccCccEECCHHHHHHHHHHHHHh-----------CCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHHH
Confidence            45789999999888888775421           245799999999999999999998665   4689999998763211


Q ss_pred             ccchHHHHHHHHHHH-----------HhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC-----
Q 007255           94 VGESEKALREAFSQA-----------SSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK-----  157 (611)
Q Consensus        94 ~~~~~~~l~~~f~~~-----------~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-----  157 (611)
                      .   .   ..+|...           ........++.|||||+|.|..          ..+..|+..++......     
T Consensus        73 ~---~---~~lfg~~~~~~~g~~~~~~g~l~~a~gGtL~l~~i~~L~~----------~~Q~~L~~~l~~~~~~~~g~~~  136 (326)
T PRK11608         73 L---D---SELFGHEAGAFTGAQKRHPGRFERADGGTLFLDELATAPM----------LVQEKLLRVIEYGELERVGGSQ  136 (326)
T ss_pred             H---H---HHHccccccccCCcccccCCchhccCCCeEEeCChhhCCH----------HHHHHHHHHHhcCcEEeCCCCc
Confidence            0   0   1111110           0001123467999999999865          67888888887643111     


Q ss_pred             CCCCcEEEEEeecCc-------ccccHHhhccCCcc-eEEEccCCCH--HHHHHHHHHhhcCC----CCC--CcccHHHH
Q 007255          158 TSVPHVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPTA--EERFEILKLYTKKV----PLD--ANVDLEAI  221 (611)
Q Consensus       158 ~~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf~-~~i~~~~p~~--~~r~~Il~~~~~~~----~~~--~~~~~~~l  221 (611)
                      ....++.+|++|+..       ..+.+.+..  ||. ..|.+|+...  ++...++++++...    ...  ....-+.+
T Consensus       137 ~~~~~~RiI~~s~~~l~~l~~~g~f~~dL~~--~l~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~al  214 (326)
T PRK11608        137 PLQVNVRLVCATNADLPAMVAEGKFRADLLD--RLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLFPGFTERAR  214 (326)
T ss_pred             eeeccEEEEEeCchhHHHHHHcCCchHHHHH--hcCCCEEECCChhhhhhhHHHHHHHHHHHHHHHhCCCCCCCCCHHHH
Confidence            112357888887763       245566765  663 3455555422  23444555554321    111  11121221


Q ss_pred             HHh-ccCC--ccccHHHHHHHHHHH
Q 007255          222 ATS-CNGY--VGADLEALCREATMS  243 (611)
Q Consensus       222 a~~-~~g~--~~~dl~~l~~~a~~~  243 (611)
                      ... ...|  +-++|++++..++..
T Consensus       215 ~~L~~y~WPGNvrEL~~vl~~a~~~  239 (326)
T PRK11608        215 ETLLNYRWPGNIRELKNVVERSVYR  239 (326)
T ss_pred             HHHHhCCCCcHHHHHHHHHHHHHHh
Confidence            111 1223  346777887777654

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=98.95  E-value=1.2e-08  Score=112.24  Aligned_cols=140  Identities=17%  Similarity=0.265  Sum_probs=95.8

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCC--cEEEEcccccccccccchHHHHHHHHHHH----Hh-hhhcCCCeEEEEcccc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGA--HLTVISPHSVHKAHVGESEKALREAFSQA----SS-HALSGKPSVVFIDEID  126 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~--~~~~v~~~~~~~~~~~~~~~~l~~~f~~~----~~-~~~~~~~~il~IDeid  126 (611)
                      .+|||.|+||||||++++++++.+..  +|+.+..+......+|...  +...+...    .. .....+.++|||||++
T Consensus        17 g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~id--l~~~~~~g~~~~~~G~L~~A~~GvL~lDEi~   94 (589)
T TIGR02031        17 GGVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGID--VEESLAGGQRVTQPGLLDEAPRGVLYVDMAN   94 (589)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccchh--hhhhhhcCcccCCCCCeeeCCCCcEeccchh
Confidence            59999999999999999999998764  5887775433333333321  11101100    00 0112345799999999


Q ss_pred             ccCCCCCCCchhhHHHHHHHHHHHhcCC-------CCCCCCCcEEEEEeecCcc---cccHHhhccCCcceEEEccC-CC
Q 007255          127 ALCPRRDHRREQDVRIASQLFTLMDSNK-------PSKTSVPHVVVVASTNRVD---AIDPALRRSGRFDAEVEVTV-PT  195 (611)
Q Consensus       127 ~l~~~~~~~~~~~~~~~~~ll~~l~~~~-------~~~~~~~~v~ii~ttn~~~---~l~~~l~~~~Rf~~~i~~~~-p~  195 (611)
                      .+.+          ..+..|+..|+...       .....+..+.+|+|+|+.+   .+.+++..  ||..++.+.. |+
T Consensus        95 rl~~----------~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~Lld--Rf~l~v~~~~~~~  162 (589)
T TIGR02031        95 LLDD----------GLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLD--RLALHVSLEDVAS  162 (589)
T ss_pred             hCCH----------HHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHH--hccCeeecCCCCC
Confidence            8865          67889999998643       1112234689999999865   78999998  9987776654 57


Q ss_pred             HHHHHHHHHHhh
Q 007255          196 AEERFEILKLYT  207 (611)
Q Consensus       196 ~~~r~~Il~~~~  207 (611)
                      .++|.+|++...
T Consensus       163 ~~er~eil~~~~  174 (589)
T TIGR02031       163 QDLRVEIVRRER  174 (589)
T ss_pred             HHHHHHHHHHHH
Confidence            778889888765

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>TIGR00368 Mg chelatase-related protein

Probab=98.94  E-value=7.8e-09  Score=110.91  Aligned_cols=153  Identities=22%  Similarity=0.254  Sum_probs=94.4

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC----cEEEEccc-ccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA----HLTVISPH-SVH   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~----~~~~v~~~-~~~   90 (611)
                      .+|+++.|++.+++.+.-.+               ....+++|.||||||||++++.++..+..    ..+.+..- ++.
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa---------------~~g~~vlliG~pGsGKTtlar~l~~llp~~~~~~~le~~~i~s~~  253 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAA---------------AGGHNLLLFGPPGSGKTMLASRLQGILPPLTNEEAIETARIWSLV  253 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhc---------------cCCCEEEEEecCCCCHHHHHHHHhcccCCCCCcEEEeccccccch
Confidence            47899999999987765543               23479999999999999999999875521    11111110 000


Q ss_pred             cc---------------cccchHHHHHHHHHHH----HhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh
Q 007255           91 KA---------------HVGESEKALREAFSQA----SSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (611)
Q Consensus        91 ~~---------------~~~~~~~~l~~~f~~~----~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~  151 (611)
                      ..               +...+...   ++...    .......+.++|||||++.+.+          ..+..|+..|+
T Consensus       254 g~~~~~~~~~~~Pf~~p~~s~s~~~---~~ggg~~~~pG~i~lA~~GvLfLDEi~e~~~----------~~~~~L~~~LE  320 (499)
T TIGR00368       254 GKLIDRKQIKQRPFRSPHHSASKPA---LVGGGPIPLPGEISLAHNGVLFLDELPEFKR----------SVLDALREPIE  320 (499)
T ss_pred             hhhccccccccCCccccccccchhh---hhCCccccchhhhhccCCCeEecCChhhCCH----------HHHHHHHHHHH
Confidence            00               00000000   00000    0000123467999999987643          67788888887


Q ss_pred             cCCC-------CCCCCCcEEEEEeecCc-----c------------------cccHHhhccCCcceEEEccCCCHHH
Q 007255          152 SNKP-------SKTSVPHVVVVASTNRV-----D------------------AIDPALRRSGRFDAEVEVTVPTAEE  198 (611)
Q Consensus       152 ~~~~-------~~~~~~~v~ii~ttn~~-----~------------------~l~~~l~~~~Rf~~~i~~~~p~~~~  198 (611)
                      ...-       ....+.++.+|+++|+-     .                  .++..++.  ||+..+.++.++.++
T Consensus       321 ~~~v~i~r~g~~~~~pa~frlIaa~Npcpcg~~~~~~~~c~c~~~~~~~y~~~is~pllD--R~dl~~~~~~~~~~~  395 (499)
T TIGR00368       321 DGSISISRASAKIFYPARFQLVAAMNPCPCGHYGGKNTHCRCSPQQISRYWNKLSGPFLD--RIDLSVEVPLLPPEK  395 (499)
T ss_pred             cCcEEEEecCcceeccCCeEEEEecCCcccCcCCCCcccccCCHHHHHHHhhhccHhHHh--hCCEEEEEcCCCHHH
Confidence            6431       12234578999999972     1                  47788888  999888998887653

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=98.92  E-value=1.1e-09  Score=108.91  Aligned_cols=148  Identities=24%  Similarity=0.357  Sum_probs=83.8

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcE---EEEcccccccccccchHHHHHHHHHHHH-------hhhhcCCCeEEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHL---TVISPHSVHKAHVGESEKALREAFSQAS-------SHALSGKPSVVF  121 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~---~~v~~~~~~~~~~~~~~~~l~~~f~~~~-------~~~~~~~~~il~  121 (611)
                      ...++||+||+|||||++++.+.+.+...-   ..++.+..      .+...++.+.+...       -++..++.+|+|
T Consensus        32 ~~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~------Tts~~~q~~ie~~l~k~~~~~~gP~~~k~lv~f  105 (272)
T PF12775_consen   32 NGRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQ------TTSNQLQKIIESKLEKRRGRVYGPPGGKKLVLF  105 (272)
T ss_dssp             CTEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TT------HHHHHHHHCCCTTECECTTEEEEEESSSEEEEE
T ss_pred             cCCcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCC------CCHHHHHHHHhhcEEcCCCCCCCCCCCcEEEEE
Confidence            457999999999999999999888765432   22332211      11122222221111       012234567999


Q ss_pred             EccccccCCCCCCCchhhHHHHHHHHHHH---hcCCCCCCCCCcEEEEEeecCcc---cccHHhhccCCcceEEEccCCC
Q 007255          122 IDEIDALCPRRDHRREQDVRIASQLFTLM---DSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRFDAEVEVTVPT  195 (611)
Q Consensus       122 IDeid~l~~~~~~~~~~~~~~~~~ll~~l---~~~~~~~~~~~~v~ii~ttn~~~---~l~~~l~~~~Rf~~~i~~~~p~  195 (611)
                      |||++.-.++ ..+.....++++++++.-   |..........++.+++++++..   .+++++.|  +|. .+.++.|+
T Consensus       106 iDDlN~p~~d-~ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is~R~~r--~f~-i~~~~~p~  181 (272)
T PF12775_consen  106 IDDLNMPQPD-KYGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLR--HFN-ILNIPYPS  181 (272)
T ss_dssp             EETTT-S----TTS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHT--TEE-EEE----T
T ss_pred             ecccCCCCCC-CCCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhh--heE-EEEecCCC
Confidence            9999754433 233333334444443221   11111222345688999998743   68999998  774 89999999


Q ss_pred             HHHHHHHHHHhhcC
Q 007255          196 AEERFEILKLYTKK  209 (611)
Q Consensus       196 ~~~r~~Il~~~~~~  209 (611)
                      .+....|+..++..
T Consensus       182 ~~sl~~If~~il~~  195 (272)
T PF12775_consen  182 DESLNTIFSSILQS  195 (272)
T ss_dssp             CCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhh
Confidence            99999999887754

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=98.90  E-value=2e-08  Score=97.66  Aligned_cols=190  Identities=13%  Similarity=0.106  Sum_probs=121.5

Q ss_pred             cccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc------E
Q 007255          279 GVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS------F  352 (611)
Q Consensus       279 ~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------~  352 (611)
                      .+....++..+.++++++++...+.++...             ....++|+|||||||||+...+.|..+-++      +
T Consensus        30 pwvekyrP~~l~dv~~~~ei~st~~~~~~~-------------~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~   96 (360)
T KOG0990|consen   30 PWVEKYRPPFLGIVIKQEPIWSTENRYSGM-------------PGLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSML   96 (360)
T ss_pred             CCccCCCCchhhhHhcCCchhhHHHHhccC-------------CCCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHH
Confidence            344555667789999999999999888543             222289999999999999999999988553      2


Q ss_pred             EeecchhhccccccchHHHHHHHHHHHHh-------cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC
Q 007255          353 FSLSGAELYSMYVGESEALLRNTFQRARL-------AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE  425 (611)
Q Consensus       353 ~~~~~~~~~~~~~g~~~~~~~~~~~~a~~-------~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  425 (611)
                      ..+++++-.+  .+-.... -..|..++.       ..+..+++||+|.+              .....++|-+.++.  
T Consensus        97 lelnaSd~rg--id~vr~q-i~~fast~~~~~fst~~~fKlvILDEADaM--------------T~~AQnALRRviek--  157 (360)
T KOG0990|consen   97 LELNASDDRG--IDPVRQQ-IHLFASTQQPTTYSTHAAFKLVILDEADAM--------------TRDAQNALRRVIEK--  157 (360)
T ss_pred             HHhhccCccC--CcchHHH-HHHHHhhccceeccccCceeEEEecchhHh--------------hHHHHHHHHHHHHH--
Confidence            2233333222  1211222 233444442       25669999999976              35667777776664  


Q ss_pred             CCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCC-cccHHHHHHhCCCCCHHHHHHHH
Q 007255          426 QAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGD-DVDLRSIAEETELFTGAELEGLC  504 (611)
Q Consensus       426 ~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~-~~~~~~la~~~~g~s~~~i~~~~  504 (611)
                      ...++.|+..+|.|..+.|++..  ||. .+.|.+.+......++..+...-+... .+....++..+    -+|++.++
T Consensus       158 ~t~n~rF~ii~n~~~ki~pa~qs--Rct-rfrf~pl~~~~~~~r~shi~e~e~~~~~~~~~~a~~r~s----~gDmr~a~  230 (360)
T KOG0990|consen  158 YTANTRFATISNPPQKIHPAQQS--RCT-RFRFAPLTMAQQTERQSHIRESEQKETNPEGYSALGRLS----VGDMRVAL  230 (360)
T ss_pred             hccceEEEEeccChhhcCchhhc--ccc-cCCCCCCChhhhhhHHHHHHhcchhhcCHHHHHHHHHHh----HHHHHHHH
Confidence            34455566789999999999987  777 566666676666666665554443332 22334445443    33555555


Q ss_pred             HHH
Q 007255          505 REA  507 (611)
Q Consensus       505 ~~a  507 (611)
                      +-.
T Consensus       231 n~L  233 (360)
T KOG0990|consen  231 NYL  233 (360)
T ss_pred             HHH
Confidence            433

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.90  E-value=1.1e-08  Score=91.13  Aligned_cols=125  Identities=33%  Similarity=0.459  Sum_probs=74.8

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCc---EEEEccccccccc--------------ccchHHHHHHHHHHHHhhhhcC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAH---LTVISPHSVHKAH--------------VGESEKALREAFSQASSHALSG  115 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~---~~~v~~~~~~~~~--------------~~~~~~~l~~~f~~~~~~~~~~  115 (611)
                      +.+++|+||||||||++++.+|..+...   ++.++++......              ...........+..+...    
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----   77 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKL----   77 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhc----
Confidence            4689999999999999999999999775   7888776543221              122233444555555433    


Q ss_pred             CCeEEEEccccccCCCCCCCchhhHHHHHHH---HHHHhcCCCCCCCCCcEEEEEeecC-cccccHHhhccCCcceEEEc
Q 007255          116 KPSVVFIDEIDALCPRRDHRREQDVRIASQL---FTLMDSNKPSKTSVPHVVVVASTNR-VDAIDPALRRSGRFDAEVEV  191 (611)
Q Consensus       116 ~~~il~IDeid~l~~~~~~~~~~~~~~~~~l---l~~l~~~~~~~~~~~~v~ii~ttn~-~~~l~~~l~~~~Rf~~~i~~  191 (611)
                      .+.+++|||++.+......      ......   .......     ......+|+++|. ....+..+..  |++..+.+
T Consensus        78 ~~~viiiDei~~~~~~~~~------~~~~~~~~~~~~~~~~-----~~~~~~~i~~~~~~~~~~~~~~~~--~~~~~~~~  144 (148)
T smart00382       78 KPDVLILDEITSLLDAEQE------ALLLLLEELRLLLLLK-----SEKNLTVILTTNDEKDLGPALLRR--RFDRRIVL  144 (148)
T ss_pred             CCCEEEEECCcccCCHHHH------HHHHhhhhhHHHHHHH-----hcCCCEEEEEeCCCccCchhhhhh--ccceEEEe
Confidence            3689999999988663210      000000   0001100     1124678888886 3344555554  77767766


Q ss_pred             cCC
Q 007255          192 TVP  194 (611)
Q Consensus       192 ~~p  194 (611)
                      ..+
T Consensus       145 ~~~  147 (148)
T smart00382      145 LLI  147 (148)
T ss_pred             cCC
Confidence            544

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.89  E-value=6.5e-09  Score=105.89  Aligned_cols=131  Identities=18%  Similarity=0.254  Sum_probs=94.2

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCc-------------------------EEeecchhhcccccc-----chHHH
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEAS-------------------------FFSLSGAELYSMYVG-----ESEAL  371 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-------------------------~~~~~~~~~~~~~~g-----~~~~~  371 (611)
                      +.++++||+||+|+|||++|+.+|..+.|.                         ++.+++..-. ...|     -.-..
T Consensus        19 r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~-~~~g~~~~~I~id~   97 (325)
T PRK08699         19 RRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDE-PENGRKLLQIKIDA   97 (325)
T ss_pred             CcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEeccccc-ccccccCCCcCHHH
Confidence            567899999999999999999999988542                         2333321100 0001     12445


Q ss_pred             HHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhcc
Q 007255          372 LRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALM  447 (611)
Q Consensus       372 ~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~  447 (611)
                      ++.+.+.+..    ....|++||+++.+              +....+.|++.|+.  +..++.+|.+|+.++.+.+.+.
T Consensus        98 iR~l~~~~~~~p~~~~~kV~iiEp~~~L--------------d~~a~naLLk~LEe--p~~~~~~Ilvth~~~~ll~ti~  161 (325)
T PRK08699         98 VREIIDNVYLTSVRGGLRVILIHPAESM--------------NLQAANSLLKVLEE--PPPQVVFLLVSHAADKVLPTIK  161 (325)
T ss_pred             HHHHHHHHhhCcccCCceEEEEechhhC--------------CHHHHHHHHHHHHh--CcCCCEEEEEeCChHhChHHHH
Confidence            6666666643    22349999999877              35677899999984  3455778889999999999988


Q ss_pred             CCCCccceeecCCCCHHHHHHHHHH
Q 007255          448 RPGRFDLVLYVPPPDLEARHEILRV  472 (611)
Q Consensus       448 r~gRf~~~i~~~~p~~~~r~~il~~  472 (611)
                      +  |+. .+.|++|+.++..+.+..
T Consensus       162 S--Rc~-~~~~~~~~~~~~~~~L~~  183 (325)
T PRK08699        162 S--RCR-KMVLPAPSHEEALAYLRE  183 (325)
T ss_pred             H--Hhh-hhcCCCCCHHHHHHHHHh
Confidence            8  887 888999999988877753

>smart00350 MCM minichromosome maintenance proteins

Probab=98.87  E-value=8.1e-09  Score=112.28  Aligned_cols=141  Identities=21%  Similarity=0.262  Sum_probs=89.2

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE----cccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI----SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL  128 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v----~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l  128 (611)
                      ..|+||+|+||||||++++++++......+..    ++..+........   ...-|..-.........++++|||+|.+
T Consensus       236 ~~~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~~~~~~~---~~g~~~~~~G~l~~A~~Gil~iDEi~~l  312 (509)
T smart00350      236 DINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAVTRDP---ETREFTLEGGALVLADNGVCCIDEFDKM  312 (509)
T ss_pred             cceEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccccceEcc---CcceEEecCccEEecCCCEEEEechhhC
Confidence            45999999999999999999999875433221    1111111000000   0000000000011234679999999988


Q ss_pred             CCCCCCCchhhHHHHHHHHHHHhcCCC-------CCCCCCcEEEEEeecCcc-------------cccHHhhccCCcceE
Q 007255          129 CPRRDHRREQDVRIASQLFTLMDSNKP-------SKTSVPHVVVVASTNRVD-------------AIDPALRRSGRFDAE  188 (611)
Q Consensus       129 ~~~~~~~~~~~~~~~~~ll~~l~~~~~-------~~~~~~~v~ii~ttn~~~-------------~l~~~l~~~~Rf~~~  188 (611)
                      .+          ..+..|+..|+...-       ....+.++.+|+++|+.+             .+++++.+  ||+..
T Consensus       313 ~~----------~~q~~L~e~me~~~i~i~k~G~~~~l~~~~~viAa~NP~~g~y~~~~~~~~n~~l~~~lLs--RFdLi  380 (509)
T smart00350      313 DD----------SDRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIGGRYDPKLTPEENIDLPAPILS--RFDLL  380 (509)
T ss_pred             CH----------HHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCCcccCCCcChhhccCCChHHhC--ceeeE
Confidence            55          567788888876321       111234689999999853             58999999  99754


Q ss_pred             -EEccCCCHHHHHHHHHHhhc
Q 007255          189 -VEVTVPTAEERFEILKLYTK  208 (611)
Q Consensus       189 -i~~~~p~~~~r~~Il~~~~~  208 (611)
                       +..+.|+.+...+|.++.+.
T Consensus       381 ~~~~d~~~~~~d~~i~~~i~~  401 (509)
T smart00350      381 FVVLDEVDEERDRELAKHVVD  401 (509)
T ss_pred             EEecCCCChHHHHHHHHHHHH
Confidence             45678999999999988654

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=98.87  E-value=6.4e-08  Score=106.80  Aligned_cols=50  Identities=28%  Similarity=0.452  Sum_probs=43.0

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH   80 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~   80 (611)
                      .-+++++|+++.++.+..++..               +.+++|+||||||||++++++++.++..
T Consensus        15 ~~~~~viG~~~a~~~l~~a~~~---------------~~~~ll~G~pG~GKT~la~~la~~l~~~   64 (608)
T TIGR00764        15 RLIDQVIGQEEAVEIIKKAAKQ---------------KRNVLLIGEPGVGKSMLAKAMAELLPDE   64 (608)
T ss_pred             hhHhhccCHHHHHHHHHHHHHc---------------CCCEEEECCCCCCHHHHHHHHHHHcCch
Confidence            4568999999999998887643               2499999999999999999999998754

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=98.87  E-value=2e-08  Score=108.50  Aligned_cols=163  Identities=18%  Similarity=0.287  Sum_probs=102.5

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHH-----------hCCcEEEEc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRE-----------CGAHLTVIS   85 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~-----------l~~~~~~v~   85 (611)
                      .|++++|.....+.+.+.+....           ....+|||+|++||||+++|+++.+.           .+.+|+.++
T Consensus       217 ~f~~iiG~S~~m~~~~~~i~~~A-----------~s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~in  285 (538)
T PRK15424        217 VLGDLLGQSPQMEQVRQTILLYA-----------RSSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVN  285 (538)
T ss_pred             chhheeeCCHHHHHHHHHHHHHh-----------CCCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEee
Confidence            57889999999998888775421           24579999999999999999999876           356899999


Q ss_pred             ccccccccccchHHHHHHHHH-------HHHh-----hhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcC
Q 007255           86 PHSVHKAHVGESEKALREAFS-------QASS-----HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN  153 (611)
Q Consensus        86 ~~~~~~~~~~~~~~~l~~~f~-------~~~~-----~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~  153 (611)
                      |..+.....   +   ..+|.       .+..     ......++.|||||++.|..          ..+..|+..++..
T Consensus       286 Caal~e~ll---e---seLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~----------~~Q~kLl~~L~e~  349 (538)
T PRK15424        286 CGAIAESLL---E---AELFGYEEGAFTGSRRGGRAGLFEIAHGGTLFLDEIGEMPL----------PLQTRLLRVLEEK  349 (538)
T ss_pred             cccCChhhH---H---HHhcCCccccccCccccccCCchhccCCCEEEEcChHhCCH----------HHHHHHHhhhhcC
Confidence            987643211   0   01111       1100     00112367999999998865          6788899998764


Q ss_pred             CCC-----CCCCCcEEEEEeecCcc-------cccHHhhccCCcceEEEccCCCHHHH----HHHHHHhhcC
Q 007255          154 KPS-----KTSVPHVVVVASTNRVD-------AIDPALRRSGRFDAEVEVTVPTAEER----FEILKLYTKK  209 (611)
Q Consensus       154 ~~~-----~~~~~~v~ii~ttn~~~-------~l~~~l~~~~Rf~~~i~~~~p~~~~r----~~Il~~~~~~  209 (611)
                      ...     .....++.+|++|+..-       .+.+.+..  |+. .+.+..|...+|    ..++++++..
T Consensus       350 ~~~r~G~~~~~~~dvRiIaat~~~L~~~v~~g~Fr~dL~y--rL~-~~~I~lPPLReR~eDI~~L~~~fl~~  418 (538)
T PRK15424        350 EVTRVGGHQPVPVDVRVISATHCDLEEDVRQGRFRRDLFY--RLS-ILRLQLPPLRERVADILPLAESFLKQ  418 (538)
T ss_pred             eEEecCCCceeccceEEEEecCCCHHHHHhcccchHHHHH--Hhc-CCeecCCChhhchhHHHHHHHHHHHH
Confidence            311     11223578888887631       12233333  443 345555555544    4455555543

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.86  E-value=7.7e-09  Score=113.81  Aligned_cols=199  Identities=17%  Similarity=0.214  Sum_probs=120.3

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA   92 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~   92 (611)
                      ..++.++|.....+.+.+.+....           ....+|||+|++||||+++|+++....   +.+|+.++|..+...
T Consensus       193 ~~~~~liG~s~~~~~~~~~~~~~a-----------~~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~~  261 (534)
T TIGR01817       193 GKEDGIIGKSPAMRQVVDQARVVA-----------RSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSET  261 (534)
T ss_pred             CccCceEECCHHHHHHHHHHHHHh-----------CcCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCHH
Confidence            456889999999999888775421           245799999999999999999999875   568999999876331


Q ss_pred             cccchHHHHHHHHHHHH-----------hhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC----
Q 007255           93 HVGESEKALREAFSQAS-----------SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK----  157 (611)
Q Consensus        93 ~~~~~~~~l~~~f~~~~-----------~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~----  157 (611)
                      ..   +   ..+|....           .......+++|||||++.|.+          ..+..|+..++......    
T Consensus       262 ~~---~---~~lfg~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~----------~~Q~~Ll~~l~~~~~~~~~~~  325 (534)
T TIGR01817       262 LL---E---SELFGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISP----------AFQAKLLRVLQEGEFERVGGN  325 (534)
T ss_pred             HH---H---HHHcCCCCCccCCCCcCCCCcccccCCCeEEEechhhCCH----------HHHHHHHHHHhcCcEEECCCC
Confidence            10   0   11121110           001123467999999999865          67888888887643211    


Q ss_pred             -CCCCcEEEEEeecCc-------ccccHHhhccCCcc-eEEEccCCC--HHHHHHHHHHhhcCC----CCCCccc---HH
Q 007255          158 -TSVPHVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPT--AEERFEILKLYTKKV----PLDANVD---LE  219 (611)
Q Consensus       158 -~~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf~-~~i~~~~p~--~~~r~~Il~~~~~~~----~~~~~~~---~~  219 (611)
                       ....++.+|++|+..       ..+.+.|..  |+. ..|.+|+..  .++...++++++...    .......   +.
T Consensus       326 ~~~~~~~riI~~s~~~l~~~~~~~~f~~~L~~--rl~~~~i~lPpLreR~eDi~~L~~~~l~~~~~~~~~~~~~s~~a~~  403 (534)
T TIGR01817       326 RTLKVDVRLVAATNRDLEEAVAKGEFRADLYY--RINVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRPLTITPSAIR  403 (534)
T ss_pred             ceEeecEEEEEeCCCCHHHHHHcCCCCHHHHH--HhcCCeeeCCCcccccccHHHHHHHHHHHHHHHcCCCCCCCHHHHH
Confidence             112247888888753       133344443  443 346666654  345556666665432    1111111   33


Q ss_pred             HHHHhccCCccccHHHHHHHHHHH
Q 007255          220 AIATSCNGYVGADLEALCREATMS  243 (611)
Q Consensus       220 ~la~~~~g~~~~dl~~l~~~a~~~  243 (611)
                      .+....=--+-++|++++..++..
T Consensus       404 ~L~~~~WPGNvrEL~~v~~~a~~~  427 (534)
T TIGR01817       404 VLMSCKWPGNVRELENCLERTATL  427 (534)
T ss_pred             HHHhCCCCChHHHHHHHHHHHHHh
Confidence            333321112346778888777654

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=98.86  E-value=1.4e-07  Score=93.71  Aligned_cols=170  Identities=13%  Similarity=0.127  Sum_probs=108.4

Q ss_pred             hhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEE----------------eecch
Q 007255          295 LRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF----------------SLSGA  358 (611)
Q Consensus       295 ~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~----------------~~~~~  358 (611)
                      +..+.+.+...+..            .+.++++||+||  +||+.+|+++|..+.|.--                .-+-+
T Consensus         7 q~~~~~~L~~~~~~------------~rl~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HP   72 (290)
T PRK07276          7 QPKVFQRFQTILEQ------------DRLNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFS   72 (290)
T ss_pred             HHHHHHHHHHHHHc------------CCcceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            45566667666653            366789999996  6899999999988744310                00111


Q ss_pred             hhcccc-ccc--hHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeE
Q 007255          359 ELYSMY-VGE--SEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGIL  431 (611)
Q Consensus       359 ~~~~~~-~g~--~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  431 (611)
                      |+.--. .|.  .-..++.+.+.+..    ....|++||++|.+              +....|.||+.|+  +++++++
T Consensus        73 D~~~i~p~~~~I~idqIR~l~~~~~~~p~~~~~kV~II~~ad~m--------------~~~AaNaLLKtLE--EPp~~t~  136 (290)
T PRK07276         73 DVTVIEPQGQVIKTDTIRELVKNFSQSGYEGKQQVFIIKDADKM--------------HVNAANSLLKVIE--EPQSEIY  136 (290)
T ss_pred             CeeeecCCCCcCCHHHHHHHHHHHhhCcccCCcEEEEeehhhhc--------------CHHHHHHHHHHhc--CCCCCeE
Confidence            211100 111  23455555554432    22359999999977              3567899999999  6888899


Q ss_pred             EEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHH
Q 007255          432 VLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCR  505 (611)
Q Consensus       432 vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~  505 (611)
                      +|.+|+.++.+-|.+++  |+. ++.|+. +.+...+++..    .++.  .+...++....| +++....+..
T Consensus       137 ~iL~t~~~~~lLpTI~S--Rcq-~i~f~~-~~~~~~~~L~~----~g~~--~~~a~~la~~~~-s~~~A~~l~~  199 (290)
T PRK07276        137 IFLLTNDENKVLPTIKS--RTQ-IFHFPK-NEAYLIQLLEQ----KGLL--KTQAELLAKLAQ-STSEAEKLAQ  199 (290)
T ss_pred             EEEEECChhhCchHHHH--cce-eeeCCC-cHHHHHHHHHH----cCCC--hHHHHHHHHHCC-CHHHHHHHhC
Confidence            99999999999999998  997 778865 55555555541    2222  122333334445 6666666653

>smart00350 MCM minichromosome maintenance proteins

Probab=98.86  E-value=2e-08  Score=109.33  Aligned_cols=164  Identities=23%  Similarity=0.243  Sum_probs=99.5

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee----cchhhcc----
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL----SGAELYS----  362 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~----~~~~~~~----  362 (611)
                      +|.|++.+|..+.-.+....... .-.....+...++||+|+||||||++|++++.......+..    +...+..    
T Consensus       204 ~i~G~~~~k~~l~l~l~gg~~~~-~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~~~~~  282 (509)
T smart00350      204 SIYGHEDIKKAILLLLFGGVHKN-LPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAVTR  282 (509)
T ss_pred             cccCcHHHHHHHHHHHhCCCccc-cCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccccceE
Confidence            47799999888766654311100 00001122234799999999999999999999875433221    1111211    


Q ss_pred             -ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-----------CCCCe
Q 007255          363 -MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-----------QAKGI  430 (611)
Q Consensus       363 -~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~~  430 (611)
                       ...|+.  .++.  .........+++|||++.+-              ......|+..|+.-.           -+.++
T Consensus       283 ~~~~g~~--~~~~--G~l~~A~~Gil~iDEi~~l~--------------~~~q~~L~e~me~~~i~i~k~G~~~~l~~~~  344 (509)
T smart00350      283 DPETREF--TLEG--GALVLADNGVCCIDEFDKMD--------------DSDRTAIHEAMEQQTISIAKAGITTTLNARC  344 (509)
T ss_pred             ccCcceE--EecC--ccEEecCCCEEEEechhhCC--------------HHHHHHHHHHHhcCEEEEEeCCEEEEecCCc
Confidence             111110  0000  00011234599999999872              445677777775321           12468


Q ss_pred             EEEEecCCCc-------------ccchhccCCCCccceee-cCCCCHHHHHHHHHHHhc
Q 007255          431 LVLAATNRPH-------------AIDAALMRPGRFDLVLY-VPPPDLEARHEILRVHTR  475 (611)
Q Consensus       431 ~vI~~tn~~~-------------~ld~al~r~gRf~~~i~-~~~p~~~~r~~il~~~~~  475 (611)
                      .||+|+|..+             .+++++++  |||.++. .+.|+.+....|.+..+.
T Consensus       345 ~viAa~NP~~g~y~~~~~~~~n~~l~~~lLs--RFdLi~~~~d~~~~~~d~~i~~~i~~  401 (509)
T smart00350      345 SVLAAANPIGGRYDPKLTPEENIDLPAPILS--RFDLLFVVLDEVDEERDRELAKHVVD  401 (509)
T ss_pred             EEEEEeCCCCcccCCCcChhhccCCChHHhC--ceeeEEEecCCCChHHHHHHHHHHHH
Confidence            8999999642             58999999  9996544 578999999999986554

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=98.86  E-value=3.6e-08  Score=108.63  Aligned_cols=133  Identities=20%  Similarity=0.306  Sum_probs=90.6

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCC--cEEeecchhhccccccchHHHHHHHHHH---------HHhcCCcEEEEccc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEA--SFFSLSGAELYSMYVGESEALLRNTFQR---------ARLAAPSIIFFDEA  392 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~--~~~~~~~~~~~~~~~g~~~~~~~~~~~~---------a~~~~p~il~iDei  392 (611)
                      -.++||.|+||||||++|++++..+..  +|+.+..........|...  +...+..         ....+..+||+||+
T Consensus        16 ~g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~id--l~~~~~~g~~~~~~G~L~~A~~GvL~lDEi   93 (589)
T TIGR02031        16 LGGVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGID--VEESLAGGQRVTQPGLLDEAPRGVLYVDMA   93 (589)
T ss_pred             cceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccchh--hhhhhhcCcccCCCCCeeeCCCCcEeccch
Confidence            357999999999999999999998754  5887775333333333311  1110000         01123359999999


Q ss_pred             ccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-----------CCCCeEEEEecCCCc---ccchhccCCCCccceeec
Q 007255          393 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-----------QAKGILVLAATNRPH---AIDAALMRPGRFDLVLYV  458 (611)
Q Consensus       393 d~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~~~vI~~tn~~~---~ld~al~r~gRf~~~i~~  458 (611)
                      +.+              ....++.|+..|+.-.           ....+.+|+|+|..+   .+.++++.  ||..++.+
T Consensus        94 ~rl--------------~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~Lld--Rf~l~v~~  157 (589)
T TIGR02031        94 NLL--------------DDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLD--RLALHVSL  157 (589)
T ss_pred             hhC--------------CHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHH--hccCeeec
Confidence            987              3567788888886321           124688998888765   68889998  99987776


Q ss_pred             C-CCCHHHHHHHHHHHh
Q 007255          459 P-PPDLEARHEILRVHT  474 (611)
Q Consensus       459 ~-~p~~~~r~~il~~~~  474 (611)
                      . .|+.++|.+|++...
T Consensus       158 ~~~~~~~er~eil~~~~  174 (589)
T TIGR02031       158 EDVASQDLRVEIVRRER  174 (589)
T ss_pred             CCCCCHHHHHHHHHHHH
Confidence            6 467788999988654

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=98.85  E-value=1.3e-08  Score=106.06  Aligned_cols=204  Identities=22%  Similarity=0.269  Sum_probs=121.8

Q ss_pred             cccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccc
Q 007255           13 EKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSV   89 (611)
Q Consensus        13 ~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~   89 (611)
                      .....|++|+|......++.+....           ..+.+.+||+.|.+||||..+|+++.+..   +.+|+.+||..+
T Consensus       239 ~a~y~f~~Iig~S~~m~~~~~~akr-----------~A~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAi  307 (560)
T COG3829         239 KAKYTFDDIIGESPAMLRVLELAKR-----------IAKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAI  307 (560)
T ss_pred             ccccchhhhccCCHHHHHHHHHHHh-----------hcCCCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccC
Confidence            3446789999999998888776543           22356799999999999999999998765   679999999876


Q ss_pred             cccccc-chHHHHHHHHHHHHhhhh-----cCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcC-----CCCCC
Q 007255           90 HKAHVG-ESEKALREAFSQASSHAL-----SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN-----KPSKT  158 (611)
Q Consensus        90 ~~~~~~-~~~~~l~~~f~~~~~~~~-----~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~-----~~~~~  158 (611)
                      ...... +....-+..|.-|.....     ..+++-||+|||..|..          .++..|+..+++.     ..+..
T Consensus       308 Pe~LlESELFGye~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl----------~LQaKLLRVLQEkei~rvG~t~~  377 (560)
T COG3829         308 PETLLESELFGYEKGAFTGASKGGKPGLFELANGGTLFLDEIGEMPL----------PLQAKLLRVLQEKEIERVGGTKP  377 (560)
T ss_pred             CHHHHHHHHhCcCCccccccccCCCCcceeeccCCeEEehhhccCCH----------HHHHHHHHHHhhceEEecCCCCc
Confidence            432110 000011223333332111     12356899999987643          7889999999763     22223


Q ss_pred             CCCcEEEEEeecCc-------ccccHHhhccCCcceEEEccCCCHHHHHH----HHHHhhcC----CC-----CCCcccH
Q 007255          159 SVPHVVVVASTNRV-------DAIDPALRRSGRFDAEVEVTVPTAEERFE----ILKLYTKK----VP-----LDANVDL  218 (611)
Q Consensus       159 ~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~----Il~~~~~~----~~-----~~~~~~~  218 (611)
                      .+-+|.||++||..       ..+-+.|--  |.. ++.+..|...+|.+    +...++.+    ++     +.++ -+
T Consensus       378 ~~vDVRIIAATN~nL~~~i~~G~FReDLYY--RLN-V~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~~~~v~~ls~~-a~  453 (560)
T COG3829         378 IPVDVRIIAATNRNLEKMIAEGTFREDLYY--RLN-VIPITIPPLRERKEDIPLLAEYFLDKFSRRYGRNVKGLSPD-AL  453 (560)
T ss_pred             eeeEEEEEeccCcCHHHHHhcCcchhhhee--eec-eeeecCCCcccCcchHHHHHHHHHHHHHHHcCCCcccCCHH-HH
Confidence            34579999999973       122233322  433 45556665555544    33333332    21     1111 12


Q ss_pred             HHHH-HhccCCccccHHHHHHHHHH
Q 007255          219 EAIA-TSCNGYVGADLEALCREATM  242 (611)
Q Consensus       219 ~~la-~~~~g~~~~dl~~l~~~a~~  242 (611)
                      ..+. ..+.| +-|+|++++..++.
T Consensus       454 ~~L~~y~WPG-NVRELeNviER~v~  477 (560)
T COG3829         454 ALLLRYDWPG-NVRELENVIERAVN  477 (560)
T ss_pred             HHHHhCCCCc-hHHHHHHHHHHHHh
Confidence            2222 12222 34788888888775

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=98.85  E-value=2.4e-08  Score=98.83  Aligned_cols=122  Identities=14%  Similarity=0.147  Sum_probs=86.2

Q ss_pred             CCCCCCcceeCCCCCChHHHHHHHHHHhCCcEE--------eecchhhcccc-cc----chHHHHHHHHHHHHh----cC
Q 007255          321 ISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF--------SLSGAELYSMY-VG----ESEALLRNTFQRARL----AA  383 (611)
Q Consensus       321 ~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~--------~~~~~~~~~~~-~g----~~~~~~~~~~~~a~~----~~  383 (611)
                      .+.++++||+||+|+||+.+|.++|..+.|.--        .-.-+|+.--. .|    -.-..++.+.+.+..    ..
T Consensus        16 ~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~   95 (290)
T PRK05917         16 QKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESP   95 (290)
T ss_pred             CCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCC
Confidence            356789999999999999999999998865310        00011111000 11    123345555554432    22


Q ss_pred             CcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCC
Q 007255          384 PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPP  461 (611)
Q Consensus       384 p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p  461 (611)
                      ..|++||++|.+              +....|.||+.|+  ++++++++|..|+.++.+.|.+++  |+. .+.|+++
T Consensus        96 ~kv~ii~~ad~m--------------t~~AaNaLLK~LE--EPp~~~~fiL~~~~~~~ll~TI~S--Rcq-~~~~~~~  154 (290)
T PRK05917         96 YKIYIIHEADRM--------------TLDAISAFLKVLE--DPPQHGVIILTSAKPQRLPPTIRS--RSL-SIHIPME  154 (290)
T ss_pred             ceEEEEechhhc--------------CHHHHHHHHHHhh--cCCCCeEEEEEeCChhhCcHHHHh--cce-EEEccch
Confidence            349999999987              3567899999999  789999999999999999999988  887 6667654

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.85  E-value=3.9e-08  Score=100.19  Aligned_cols=135  Identities=22%  Similarity=0.383  Sum_probs=97.2

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCc-------------------------EEEEccccccccccc-----chHHH
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------------------------LTVISPHSVHKAHVG-----ESEKA  100 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-------------------------~~~v~~~~~~~~~~~-----~~~~~  100 (611)
                      +.+..+||+||+|+|||++++.+|+.+.+.                         ++.+++..-. ...|     -....
T Consensus        19 r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~-~~~g~~~~~I~id~   97 (325)
T PRK08699         19 RRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDE-PENGRKLLQIKIDA   97 (325)
T ss_pred             CcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEeccccc-ccccccCCCcCHHH
Confidence            456789999999999999999999987431                         2333321100 0001     23456


Q ss_pred             HHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhh
Q 007255          101 LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALR  180 (611)
Q Consensus       101 l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~  180 (611)
                      ++.+.+.+...+..+...|++||+++.|.+          ..++.+++.+++..      .++.+|.+|+.++.+.+.++
T Consensus        98 iR~l~~~~~~~p~~~~~kV~iiEp~~~Ld~----------~a~naLLk~LEep~------~~~~~Ilvth~~~~ll~ti~  161 (325)
T PRK08699         98 VREIIDNVYLTSVRGGLRVILIHPAESMNL----------QAANSLLKVLEEPP------PQVVFLLVSHAADKVLPTIK  161 (325)
T ss_pred             HHHHHHHHhhCcccCCceEEEEechhhCCH----------HHHHHHHHHHHhCc------CCCEEEEEeCChHhChHHHH
Confidence            777777766655555667999999998854          66788999998743      13556778888889999999


Q ss_pred             ccCCcceEEEccCCCHHHHHHHHHH
Q 007255          181 RSGRFDAEVEVTVPTAEERFEILKL  205 (611)
Q Consensus       181 ~~~Rf~~~i~~~~p~~~~r~~Il~~  205 (611)
                      +  |+. .+.|++|+.++..+.+..
T Consensus       162 S--Rc~-~~~~~~~~~~~~~~~L~~  183 (325)
T PRK08699        162 S--RCR-KMVLPAPSHEEALAYLRE  183 (325)
T ss_pred             H--Hhh-hhcCCCCCHHHHHHHHHh
Confidence            8  874 889999999998887764

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=98.85  E-value=1.3e-08  Score=110.15  Aligned_cols=165  Identities=18%  Similarity=0.254  Sum_probs=102.4

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA   92 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~   92 (611)
                      ..|++++|.....+.+.+.+...           .....+|||+|++||||+++|+++.+..   +.+|+.++|..+...
T Consensus       209 ~~f~~iiG~S~~m~~~~~~i~~~-----------A~~~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~e~  277 (526)
T TIGR02329       209 YRLDDLLGASAPMEQVRALVRLY-----------ARSDATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAES  277 (526)
T ss_pred             cchhheeeCCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCChh
Confidence            45788999999999888877542           1235799999999999999999998764   568999999876431


Q ss_pred             cccchHHHHHHHHH-------HHHh-----hhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC----
Q 007255           93 HVGESEKALREAFS-------QASS-----HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS----  156 (611)
Q Consensus        93 ~~~~~~~~l~~~f~-------~~~~-----~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~----  156 (611)
                      ..   +   ..+|.       .+..     ......++.|||||++.|..          ..+..|+..++.....    
T Consensus       278 ll---e---seLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~----------~~Q~~Ll~~L~~~~~~r~g~  341 (526)
T TIGR02329       278 LL---E---AELFGYEEGAFTGARRGGRTGLIEAAHRGTLFLDEIGEMPL----------PLQTRLLRVLEEREVVRVGG  341 (526)
T ss_pred             HH---H---HHhcCCcccccccccccccccchhhcCCceEEecChHhCCH----------HHHHHHHHHHhcCcEEecCC
Confidence            10   0   01111       1000     00112467999999998865          6788899998764321    


Q ss_pred             -CCCCCcEEEEEeecCcc-------cccHHhhccCCcc-eEEEccCCCH--HHHHHHHHHhhcC
Q 007255          157 -KTSVPHVVVVASTNRVD-------AIDPALRRSGRFD-AEVEVTVPTA--EERFEILKLYTKK  209 (611)
Q Consensus       157 -~~~~~~v~ii~ttn~~~-------~l~~~l~~~~Rf~-~~i~~~~p~~--~~r~~Il~~~~~~  209 (611)
                       .....++.+|++|+..-       .+.+.+..  |+. ..|.+|+...  ++...++.+++..
T Consensus       342 ~~~~~~dvRiIaat~~~l~~~v~~g~fr~dL~~--rL~~~~I~lPPLReR~eDI~~L~~~fl~~  403 (526)
T TIGR02329       342 TEPVPVDVRVVAATHCALTTAVQQGRFRRDLFY--RLSILRIALPPLRERPGDILPLAAEYLVQ  403 (526)
T ss_pred             CceeeecceEEeccCCCHHHHhhhcchhHHHHH--hcCCcEEeCCCchhchhHHHHHHHHHHHH
Confidence             11223467888887631       23334433  543 3445555422  2444455555543

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=98.82  E-value=1.7e-09  Score=92.28  Aligned_cols=108  Identities=29%  Similarity=0.361  Sum_probs=59.5

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecc------hhhccccccchHHHHHHHHHHHH-hcCCcEEEEccccccccc
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSG------AELYSMYVGESEALLRNTFQRAR-LAAPSIIFFDEADVVGAK  398 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~------~~~~~~~~g~~~~~~~~~~~~a~-~~~p~il~iDeid~l~~~  398 (611)
                      |+||.|+||+|||++|+++|..++..|..+..      +|+.+-.+-+...   .-|...+ -.-..|+++|||...   
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~---~~f~~~~GPif~~ill~DEiNra---   74 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQET---GEFEFRPGPIFTNILLADEINRA---   74 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTT---TEEEEEE-TT-SSEEEEETGGGS---
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCC---CeeEeecChhhhceeeecccccC---
Confidence            58999999999999999999999999987755      3333321111000   0000000 000239999999765   


Q ss_pred             CCCCCCCCcchhHHHHHHHHHHhcCC---------CCCCCeEEEEecCCCc-----ccchhccCCCCc
Q 007255          399 RGGSSSTSITVGERLLSTLLTEMDGL---------EQAKGILVLAATNRPH-----AIDAALMRPGRF  452 (611)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~ll~~l~~~---------~~~~~~~vI~~tn~~~-----~ld~al~r~gRf  452 (611)
                                 ..+.+++||..|...         .-++.++||+|-|..+     .++.+++.  ||
T Consensus        75 -----------ppktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~D--RF  129 (131)
T PF07726_consen   75 -----------PPKTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLD--RF  129 (131)
T ss_dssp             ------------HHHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHT--TS
T ss_pred             -----------CHHHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhc--cc
Confidence                       356789999888521         2234588998888766     57777777  76

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=98.82  E-value=2.3e-08  Score=112.73  Aligned_cols=384  Identities=16%  Similarity=0.081  Sum_probs=190.8

Q ss_pred             CCCceEEEEcCCCCcHHHHHH-HHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhc-----------CCCe
Q 007255           51 KWPRGLLLYGPPGTGKTSLVR-AVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALS-----------GKPS  118 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~-~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~-----------~~~~  118 (611)
                      ...+++++|||||+|||++.. ++-.++...++.+|-+.-.     .+...+ .++++.......           .+..
T Consensus      1492 nt~R~~i~cGppGSgK~mlM~~sLrs~~~~ev~~~Nfs~~t-----~T~s~l-s~Ler~t~yy~~tg~~~l~PK~~vK~l 1565 (3164)
T COG5245        1492 NTLRSYIYCGPPGSGKEMLMCPSLRSELITEVKYFNFSTCT-----MTPSKL-SVLERETEYYPNTGVVRLYPKPVVKDL 1565 (3164)
T ss_pred             hccceEEEECCCCCccchhcchhhhhhhheeeeEEeecccc-----CCHHHH-HHHHhhceeeccCCeEEEccCcchhhe
Confidence            356899999999999999754 5566666777776654321     111122 222222211111           1235


Q ss_pred             EEEEccccccCCCCCCCchhhHHHHHHHHHHHhcC------CCCCCCCCcEEEEEeecCcc-----cccHHhhccCCcce
Q 007255          119 VVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN------KPSKTSVPHVVVVASTNRVD-----AIDPALRRSGRFDA  187 (611)
Q Consensus       119 il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~------~~~~~~~~~v~ii~ttn~~~-----~l~~~l~~~~Rf~~  187 (611)
                      |||+|||+ |...++...+..   +-.+..+++..      ........++++.|+||++.     ..+.++.|  | ..
T Consensus      1566 VLFcDeIn-Lp~~~~y~~~~v---I~FlR~l~e~QGfw~s~~~~wvTI~~i~l~Gacnp~td~gRv~~~eRf~r--~-~v 1638 (3164)
T COG5245        1566 VLFCDEIN-LPYGFEYYPPTV---IVFLRPLVERQGFWSSIAVSWVTICGIILYGACNPGTDEGRVKYYERFIR--K-PV 1638 (3164)
T ss_pred             EEEeeccC-CccccccCCCce---EEeeHHHHHhcccccchhhhHhhhcceEEEccCCCCCCcccCccHHHHhc--C-ce
Confidence            99999998 555444433322   22222333331      11223446799999999975     33466665  3 35


Q ss_pred             EEEccCCCHHHHHHHHHHhhcCCCCCC-cc------------c--------HHHHHHhccCCccccHHHHHHHHHH----
Q 007255          188 EVEVTVPTAEERFEILKLYTKKVPLDA-NV------------D--------LEAIATSCNGYVGADLEALCREATM----  242 (611)
Q Consensus       188 ~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~------------~--------~~~la~~~~g~~~~dl~~l~~~a~~----  242 (611)
                      .+++..|....+.+|+..++.+..+-. ..            .        .....+..-||+++++-.+++....    
T Consensus      1639 ~vf~~ype~~SL~~Iyea~l~~s~l~~~ef~~~se~~~~aSv~ly~~~k~~~k~~lq~~y~y~pReLtR~lr~i~~yaeT 1718 (3164)
T COG5245        1639 FVFCCYPELASLRNIYEAVLMGSYLCFDEFNRLSEETMSASVELYLSSKDKTKFFLQMNYGYKPRELTRSLRAIFGYAET 1718 (3164)
T ss_pred             EEEecCcchhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccccccChHHHHHHHHHHHhHHhc
Confidence            678889999999999988775532111 10            0        1111112246788877555443332    


Q ss_pred             ---------------HHhhhcccccccccccchhHHHHHHHHhccCCcccccccccCCCccccccc--chhHH-HHHHHH
Q 007255          243 ---------------SAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIG--GLRDL-KKKLQQ  304 (611)
Q Consensus       243 ---------------~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~~~~~~~~~~~~~~~~i~--g~~~~-k~~l~~  304 (611)
                                     .+++...+....+..-+..++++.......-+.... .........|++|.  |++.+ ++.+..
T Consensus      1719 ~~~t~~~slI~~wy~ea~r~~~dRLV~qkE~st~~q~ly~~~~~~~~e~~~-g~i~e~~I~fS~Il~~g~~~l~k~dl~~ 1797 (3164)
T COG5245        1719 RIDTPDVSLIIDWYCEAIREKIDRLVQQKESSTSRQDLYDFGLRAIREMIA-GHIGEAEITFSMILFFGMACLLKKDLAV 1797 (3164)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHhhhhhhh-cccchhhhhHHHHHhccHHHHhhhhHHH
Confidence                           222222221111111111222222111111110000 00111223344432  22222 222222


Q ss_pred             Hhhc-------------------cCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccc
Q 007255          305 AVEW-------------------PIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (611)
Q Consensus       305 ~~~~-------------------~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~  365 (611)
                      .++.                   .+.|.-.+.+.-.....+.++.|..|+||+.+.+.+|..-+.+++.+....-  ...
T Consensus      1798 fvEe~~K~F~sshl~v~~V~~~~~l~HiLr~~R~l~~vggh~~l~g~~~~g~~~~~efvcwlN~~~m~e~~~hr~--~~~ 1875 (3164)
T COG5245        1798 FVEEVRKIFGSSHLDVEAVAYKDALLHILRSRRGLLVVGGHGVLKGVLIRGACDAREFVCWLNPRNMREIFGHRD--ELT 1875 (3164)
T ss_pred             HHHHHHHHhcccCCCCceeeeHHHHHHHHHHHHHHHHhccchhhhhhhhhhhHHHHHHHHHhCccchhhhhcccc--cch
Confidence            2210                   1112222333223445678999999999999999999776766665543221  124


Q ss_pred             cchHHHHHHHHHHHH-hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccch
Q 007255          366 GESEALLRNTFQRAR-LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDA  444 (611)
Q Consensus       366 g~~~~~~~~~~~~a~-~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~  444 (611)
                      |+.+..++...-.+. ......+||||---+                  ...+|..|..+-.+.++..+...|....|..
T Consensus      1876 ~Df~d~lk~~~~~~~~~~~r~Cl~I~Esi~~------------------es~fLe~~N~LL~n~~~~~lf~gne~~~I~~ 1937 (3164)
T COG5245        1876 GDFRDSLKVQDLRRNIHGGRECLFIFESIPV------------------ESSFLEDFNPLLDNNRFLCLFSGNERIRIPE 1937 (3164)
T ss_pred             hhHHHHHHHHHHhccccCCceEEEEecCCcc------------------chHHHHHhhhhhhccccchhccchhHHHHHH
Confidence            455554444333322 223448888874222                  1334444444445667777777777666666


Q ss_pred             hccCCCCccceeecCCCCHHHHHHHHH
Q 007255          445 ALMRPGRFDLVLYVPPPDLEARHEILR  471 (611)
Q Consensus       445 al~r~gRf~~~i~~~~p~~~~r~~il~  471 (611)
                      .+....++.   .+..-++++...++-
T Consensus      1938 nlr~~~es~---~L~~dTe~tlt~vFl 1961 (3164)
T COG5245        1938 NLRFVFEST---SLEKDTEATLTRVFL 1961 (3164)
T ss_pred             HHHhhhhcc---ccccCCHHHHHHHHH
Confidence            555422222   233455666666665

>PRK12377 putative replication protein; Provisional

Probab=98.82  E-value=1.7e-08  Score=98.38  Aligned_cols=69  Identities=17%  Similarity=0.237  Sum_probs=47.9

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchH--HHHHHHHHHHHhcCCcEEEEcccccc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESE--ALLRNTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~--~~~~~~~~~a~~~~p~il~iDeid~l  395 (611)
                      .+++|+||||||||+||.|+|+++   +..++.++..++.........  .....+++..  ...++|+|||++..
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l~~~~~~~~~~~~~l~~l--~~~dLLiIDDlg~~  175 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRLHESYDNGQSGEKFLQEL--CKVDLLVLDEIGIQ  175 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHHHHHHhccchHHHHHHHh--cCCCEEEEcCCCCC
Confidence            579999999999999999999988   677788888777664321100  0111222222  45669999999754

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=98.82  E-value=3.3e-08  Score=107.88  Aligned_cols=200  Identities=20%  Similarity=0.254  Sum_probs=119.8

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH   93 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~   93 (611)
                      ...+++|.....+.+.+.+...           ...+.+|||+|++||||+++|+++....   +.+++.++|..+....
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~-----------a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~~  253 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVV-----------AASDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESL  253 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChHH
Confidence            4578999999999888877552           1245799999999999999999998875   4689999998764321


Q ss_pred             ccchHHHHHHHHHHHH-----------hhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----C
Q 007255           94 VGESEKALREAFSQAS-----------SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----K  157 (611)
Q Consensus        94 ~~~~~~~l~~~f~~~~-----------~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~  157 (611)
                      .   +   ..+|....           .......++.|||||++.|..          ..+..|+..++.....     .
T Consensus       254 ~---e---~~lfG~~~g~~~ga~~~~~g~~~~a~gGtL~ldeI~~L~~----------~~Q~~Ll~~l~~~~~~~~g~~~  317 (509)
T PRK05022        254 A---E---SELFGHVKGAFTGAISNRSGKFELADGGTLFLDEIGELPL----------ALQAKLLRVLQYGEIQRVGSDR  317 (509)
T ss_pred             H---H---HHhcCccccccCCCcccCCcchhhcCCCEEEecChhhCCH----------HHHHHHHHHHhcCCEeeCCCCc
Confidence            1   0   01111100           001122467899999999865          6788888888764321     1


Q ss_pred             CCCCcEEEEEeecCc-------ccccHHhhccCCcceEEEccCCCHHHH----HHHHHHhhcCC----CCC-Cccc---H
Q 007255          158 TSVPHVVVVASTNRV-------DAIDPALRRSGRFDAEVEVTVPTAEER----FEILKLYTKKV----PLD-ANVD---L  218 (611)
Q Consensus       158 ~~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf~~~i~~~~p~~~~r----~~Il~~~~~~~----~~~-~~~~---~  218 (611)
                      ....++.+|++|+..       ..+.+.+..  |+. .+.+..|...+|    ..++++++...    ... ....   +
T Consensus       318 ~~~~~~RiI~~t~~~l~~~~~~~~f~~dL~~--rl~-~~~i~lPpLreR~eDI~~L~~~fl~~~~~~~~~~~~~~s~~a~  394 (509)
T PRK05022        318 SLRVDVRVIAATNRDLREEVRAGRFRADLYH--RLS-VFPLSVPPLRERGDDVLLLAGYFLEQNRARLGLRSLRLSPAAQ  394 (509)
T ss_pred             ceecceEEEEecCCCHHHHHHcCCccHHHHh--ccc-ccEeeCCCchhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHH
Confidence            122357889988763       134455544  543 344444544444    34445544332    111 1111   2


Q ss_pred             HHHHHhccCCccccHHHHHHHHHHHHhh
Q 007255          219 EAIATSCNGYVGADLEALCREATMSAVK  246 (611)
Q Consensus       219 ~~la~~~~g~~~~dl~~l~~~a~~~a~~  246 (611)
                      ..+....=-.+-++|++++..++..+..
T Consensus       395 ~~L~~y~WPGNvrEL~~~i~ra~~~~~~  422 (509)
T PRK05022        395 AALLAYDWPGNVRELEHVISRAALLARA  422 (509)
T ss_pred             HHHHhCCCCCcHHHHHHHHHHHHHhcCC
Confidence            2222221112457888888888776543

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=98.81  E-value=1.7e-07  Score=90.74  Aligned_cols=121  Identities=11%  Similarity=0.060  Sum_probs=82.5

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCcEE--------------eecchhhcccccc---chHHHHHHHHHHHH----
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASFF--------------SLSGAELYSMYVG---ESEALLRNTFQRAR----  380 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~--------------~~~~~~~~~~~~g---~~~~~~~~~~~~a~----  380 (611)
                      .+++++||+||+|+||..+|.++|..+-|.--              .-+-+|+.--+..   -....++.+.+...    
T Consensus         5 ~~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~   84 (261)
T PRK05818          5 NKTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSV   84 (261)
T ss_pred             CCCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCch
Confidence            56789999999999999999999988844310              0011111110000   11223333333321    


Q ss_pred             h-cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecC
Q 007255          381 L-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVP  459 (611)
Q Consensus       381 ~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~  459 (611)
                      . ....|++|+++|.+              +....|.||+.++  +++.++++|.+|+.++.+-|.+++  |+. .+.|+
T Consensus        85 e~~~~KV~II~~ae~m--------------~~~AaNaLLK~LE--EPp~~t~fiLit~~~~~lLpTI~S--RCq-~~~~~  145 (261)
T PRK05818         85 ESNGKKIYIIYGIEKL--------------NKQSANSLLKLIE--EPPKNTYGIFTTRNENNILNTILS--RCV-QYVVL  145 (261)
T ss_pred             hcCCCEEEEeccHhhh--------------CHHHHHHHHHhhc--CCCCCeEEEEEECChHhCchHhhh--hee-eeecC
Confidence            1 12348888888766              4678899999999  799999999999999999999998  887 46666


Q ss_pred             CC
Q 007255          460 PP  461 (611)
Q Consensus       460 ~p  461 (611)
                      .+
T Consensus       146 ~~  147 (261)
T PRK05818        146 SK  147 (261)
T ss_pred             Ch
Confidence            66

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.81  E-value=4.3e-08  Score=106.96  Aligned_cols=154  Identities=19%  Similarity=0.267  Sum_probs=96.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA   92 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~   92 (611)
                      ..|++++|.....+.+.+.+...           .....+|||+|++||||+++|+++....   +.+|+.++|..+...
T Consensus       201 ~~f~~~ig~s~~~~~~~~~~~~~-----------A~~~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~~~  269 (520)
T PRK10820        201 SAFSQIVAVSPKMRQVVEQARKL-----------AMLDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDD  269 (520)
T ss_pred             ccccceeECCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCCHH
Confidence            57788999988877777665431           1134689999999999999999987654   368999999876431


Q ss_pred             c-----ccchH-------HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC---
Q 007255           93 H-----VGESE-------KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK---  157 (611)
Q Consensus        93 ~-----~~~~~-------~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~---  157 (611)
                      .     +|...       ......|+.       ..++.|||||++.|.+          ..+..|+++++......   
T Consensus       270 ~~e~elFG~~~~~~~~~~~~~~g~~e~-------a~~GtL~LdeI~~L~~----------~~Q~~Ll~~l~~~~~~~~g~  332 (520)
T PRK10820        270 VVESELFGHAPGAYPNALEGKKGFFEQ-------ANGGSVLLDEIGEMSP----------RMQAKLLRFLNDGTFRRVGE  332 (520)
T ss_pred             HHHHHhcCCCCCCcCCcccCCCChhhh-------cCCCEEEEeChhhCCH----------HHHHHHHHHHhcCCcccCCC
Confidence            1     11000       000111222       2367899999998865          66788888887643111   


Q ss_pred             --CCCCcEEEEEeecCc-------ccccHHhhccCCcceEEEccCCCHHHHH
Q 007255          158 --TSVPHVVVVASTNRV-------DAIDPALRRSGRFDAEVEVTVPTAEERF  200 (611)
Q Consensus       158 --~~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf~~~i~~~~p~~~~r~  200 (611)
                        ....++.+|++|+..       ..+.+.+..  |+. .+.+..|...+|.
T Consensus       333 ~~~~~~~vRiI~st~~~l~~l~~~g~f~~dL~~--rL~-~~~i~lPpLreR~  381 (520)
T PRK10820        333 DHEVHVDVRVICATQKNLVELVQKGEFREDLYY--RLN-VLTLNLPPLRDRP  381 (520)
T ss_pred             CcceeeeeEEEEecCCCHHHHHHcCCccHHHHh--hcC-eeEEeCCCcccCh
Confidence              112357788887653       134566665  654 3444444444443

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=98.81  E-value=1.1e-07  Score=96.58  Aligned_cols=160  Identities=24%  Similarity=0.387  Sum_probs=105.0

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-------CCcEEeecchh
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-------EASFFSLSGAE  359 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-------~~~~~~~~~~~  359 (611)
                      ..|.-++|++..|..|.-....             +...++|+-|+.|||||++++++|.-+       ||+|- -++.+
T Consensus        14 ~pf~aivGqd~lk~aL~l~av~-------------P~iggvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~-cdP~~   79 (423)
T COG1239          14 LPFTAIVGQDPLKLALGLNAVD-------------PQIGGALIAGEKGTAKSTLARALADLLPEIEVVIGCPFN-CDPDD   79 (423)
T ss_pred             cchhhhcCchHHHHHHhhhhcc-------------cccceeEEecCCCccHHHHHHHHHHhCCccceecCCCCC-CCCCC
Confidence            4577889999999887544332             334689999999999999999999877       33221 00000


Q ss_pred             --------------------------hccccccchHHH------HHHHHH-HHHhc--------CCcEEEEccccccccc
Q 007255          360 --------------------------LYSMYVGESEAL------LRNTFQ-RARLA--------APSIIFFDEADVVGAK  398 (611)
Q Consensus       360 --------------------------~~~~~~g~~~~~------~~~~~~-~a~~~--------~p~il~iDeid~l~~~  398 (611)
                                                +..--.|.++..      +.+..+ -.+..        +..|+||||+..|   
T Consensus        80 P~~~c~~c~~k~~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL---  156 (423)
T COG1239          80 PEEMCDECRAKGDELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLL---  156 (423)
T ss_pred             hhhhhHHHHhhccccccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccc---
Confidence                                      011011222221      111111 01111        2349999999877   


Q ss_pred             CCCCCCCCcchhHHHHHHHHHHhcC-----------CCCCCCeEEEEecCCCc-ccchhccCCCCccceeecCCC-CHHH
Q 007255          399 RGGSSSTSITVGERLLSTLLTEMDG-----------LEQAKGILVLAATNRPH-AIDAALMRPGRFDLVLYVPPP-DLEA  465 (611)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~ll~~l~~-----------~~~~~~~~vI~~tn~~~-~ld~al~r~gRf~~~i~~~~p-~~~~  465 (611)
                                 .+.+++.||..+..           +..+-++++|||+|..+ +|-|.|+.  ||...+.+..| +.++
T Consensus       157 -----------~d~lvd~LLd~aaeG~n~vereGisi~hpa~fvligTmNPEeGeLrpqLlD--Rfg~~v~~~~~~~~~~  223 (423)
T COG1239         157 -----------DDHLVDALLDVAAEGVNDVEREGISIRHPARFLLIGTMNPEEGELRPQLLD--RFGLEVDTHYPLDLEE  223 (423)
T ss_pred             -----------cHHHHHHHHHHHHhCCceeeeCceeeccCccEEEEeecCccccccchhhHh--hhcceeeccCCCCHHH
Confidence                       36788899887753           12345799999999755 68899998  99999988765 6688


Q ss_pred             HHHHHHHHhcC
Q 007255          466 RHEILRVHTRN  476 (611)
Q Consensus       466 r~~il~~~~~~  476 (611)
                      |.+|++.....
T Consensus       224 rv~Ii~r~~~f  234 (423)
T COG1239         224 RVEIIRRRLAF  234 (423)
T ss_pred             HHHHHHHHHHh
Confidence            99999866553

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=98.81  E-value=2.4e-08  Score=104.30  Aligned_cols=199  Identities=22%  Similarity=0.305  Sum_probs=124.6

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH   93 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~   93 (611)
                      ....++|.....+++.+.+....           ....+||+.|++||||..+|++|.+..   +.+|+.+||..+....
T Consensus       139 ~~~~liG~S~am~~l~~~i~kvA-----------~s~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~l  207 (464)
T COG2204         139 LGGELVGESPAMQQLRRLIAKVA-----------PSDASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPENL  207 (464)
T ss_pred             ccCCceecCHHHHHHHHHHHHHh-----------CCCCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHHH
Confidence            35679999999999988875421           245799999999999999999998766   5699999998764321


Q ss_pred             -----ccchH-------HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----
Q 007255           94 -----VGESE-------KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----  156 (611)
Q Consensus        94 -----~~~~~-------~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----  156 (611)
                           +|...       ..-...|+.+       .++.||+|||..|..          .+|..|+..++.....     
T Consensus       208 ~ESELFGhekGAFTGA~~~r~G~fE~A-------~GGTLfLDEI~~mpl----------~~Q~kLLRvLqe~~~~rvG~~  270 (464)
T COG2204         208 LESELFGHEKGAFTGAITRRIGRFEQA-------NGGTLFLDEIGEMPL----------ELQVKLLRVLQEREFERVGGN  270 (464)
T ss_pred             HHHHhhcccccCcCCcccccCcceeEc-------CCceEEeeccccCCH----------HHHHHHHHHHHcCeeEecCCC
Confidence                 11000       0011123322       467999999987754          7889999999864321     


Q ss_pred             CCCCCcEEEEEeecCc-------ccccHHhhccCCcceEEEccCCCHHHHHH----HHHHhhcC----CCCC-CcccHHH
Q 007255          157 KTSVPHVVVVASTNRV-------DAIDPALRRSGRFDAEVEVTVPTAEERFE----ILKLYTKK----VPLD-ANVDLEA  220 (611)
Q Consensus       157 ~~~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~----Il~~~~~~----~~~~-~~~~~~~  220 (611)
                      ..-.-+|.||++||..       ..+-+.|--  |+. ++.+..|...+|.+    ++++++++    .+.. ....-+.
T Consensus       271 ~~i~vdvRiIaaT~~dL~~~v~~G~FReDLyy--RLn-V~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~~~~~~~s~~a  347 (464)
T COG2204         271 KPIKVDVRIIAATNRDLEEEVAAGRFREDLYY--RLN-VVPLRLPPLRERKEDIPLLAEHFLKRFAAELGRPPKGFSPEA  347 (464)
T ss_pred             cccceeeEEEeecCcCHHHHHHcCCcHHHHHh--hhc-cceecCCcccccchhHHHHHHHHHHHHHHHcCCCCCCCCHHH
Confidence            2223468999999973       133344443  553 66777777766665    44555443    2211 1222222


Q ss_pred             HHHh-ccCCc--cccHHHHHHHHHHHHhh
Q 007255          221 IATS-CNGYV--GADLEALCREATMSAVK  246 (611)
Q Consensus       221 la~~-~~g~~--~~dl~~l~~~a~~~a~~  246 (611)
                      +... ...|.  -++|++++..++..+-.
T Consensus       348 ~~~L~~y~WPGNVREL~N~ver~~il~~~  376 (464)
T COG2204         348 LAALLAYDWPGNVRELENVVERAVILSEG  376 (464)
T ss_pred             HHHHHhCCCChHHHHHHHHHHHHHhcCCc
Confidence            2222 23343  36788888887765433

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.80  E-value=7.7e-08  Score=109.03  Aligned_cols=198  Identities=19%  Similarity=0.253  Sum_probs=117.8

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA   92 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~   92 (611)
                      ..+++++|.....+.+.+.+....           ....+|||+|++|||||++|+++....   +.+++.++|..+...
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~a-----------~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~~  441 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMVA-----------QSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAG  441 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHHh-----------CCCCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCChh
Confidence            456789999999998887765421           234699999999999999999998765   568999999876421


Q ss_pred             c-----ccchH-------HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC----
Q 007255           93 H-----VGESE-------KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS----  156 (611)
Q Consensus        93 ~-----~~~~~-------~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~----  156 (611)
                      .     +|...       ......++.       ..+++|||||++.+..          ..+..|+..++.....    
T Consensus       442 ~~~~~lfg~~~~~~~g~~~~~~g~le~-------a~~GtL~Ldei~~L~~----------~~Q~~L~~~l~~~~~~~~g~  504 (686)
T PRK15429        442 LLESDLFGHERGAFTGASAQRIGRFEL-------ADKSSLFLDEVGDMPL----------ELQPKLLRVLQEQEFERLGS  504 (686)
T ss_pred             HhhhhhcCcccccccccccchhhHHHh-------cCCCeEEEechhhCCH----------HHHHHHHHHHHhCCEEeCCC
Confidence            1     11100       001112222       2367999999998855          6788888888764211    


Q ss_pred             -CCCCCcEEEEEeecCcc-------cccHHhhccCCcceEEEccCCCHHHHHH----HHHHhhcCC----CCCC-ccc--
Q 007255          157 -KTSVPHVVVVASTNRVD-------AIDPALRRSGRFDAEVEVTVPTAEERFE----ILKLYTKKV----PLDA-NVD--  217 (611)
Q Consensus       157 -~~~~~~v~ii~ttn~~~-------~l~~~l~~~~Rf~~~i~~~~p~~~~r~~----Il~~~~~~~----~~~~-~~~--  217 (611)
                       .....++.+|++|+..-       .+.+.+..  |+. .+.+..|...+|.+    ++++++...    +... ...  
T Consensus       505 ~~~~~~~~RiI~~t~~~l~~~~~~~~f~~~L~~--~l~-~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~~s~~  581 (686)
T PRK15429        505 NKIIQTDVRLIAATNRDLKKMVADREFRSDLYY--RLN-VFPIHLPPLRERPEDIPLLVKAFTFKIARRMGRNIDSIPAE  581 (686)
T ss_pred             CCcccceEEEEEeCCCCHHHHHHcCcccHHHHh--ccC-eeEEeCCChhhhHhHHHHHHHHHHHHHHHHcCCCCCCcCHH
Confidence             11224678899887631       23333433  443 44555565555544    445544322    1111 111  


Q ss_pred             -HHHHHHhccCCccccHHHHHHHHHHHH
Q 007255          218 -LEAIATSCNGYVGADLEALCREATMSA  244 (611)
Q Consensus       218 -~~~la~~~~g~~~~dl~~l~~~a~~~a  244 (611)
                       ++.+....=-.+-++|++++..++..+
T Consensus       582 al~~L~~y~WPGNvrEL~~~i~~a~~~~  609 (686)
T PRK15429        582 TLRTLSNMEWPGNVRELENVIERAVLLT  609 (686)
T ss_pred             HHHHHHhCCCCCcHHHHHHHHHHHHHhC
Confidence             233322211124477888888887643

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.80  E-value=6.2e-08  Score=99.30  Aligned_cols=169  Identities=19%  Similarity=0.177  Sum_probs=97.9

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccc-----cch-------HHHHHHHHHHHHhcCCcEEE
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYV-----GES-------EALLRNTFQRARLAAPSIIF  388 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~-----g~~-------~~~~~~~~~~a~~~~p~il~  388 (611)
                      ..++||+|++||||+++|+++....   +.+|+.++++.+.....     |..       ...-...|..   .....||
T Consensus        22 ~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~~l~~~lfG~~~g~~~ga~~~~~G~~~~---a~gGtL~   98 (329)
T TIGR02974        22 DRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGHEAGAFTGAQKRHQGRFER---ADGGTLF   98 (329)
T ss_pred             CCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChHHHHHHHhccccccccCcccccCCchhh---CCCCEEE
Confidence            3569999999999999999998765   47999999986532110     000       0000011222   2356999


Q ss_pred             EcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC---------CCCCeEEEEecCCCc-------ccchhccCCCCc
Q 007255          389 FDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE---------QAKGILVLAATNRPH-------AIDAALMRPGRF  452 (611)
Q Consensus       389 iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~~~vI~~tn~~~-------~ld~al~r~gRf  452 (611)
                      ||||+.+              ...++..|+..++.-.         ...++.+|++|+..-       .+.+.|..  |+
T Consensus        99 Ldei~~L--------------~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~~l~~~~~~g~fr~dL~~--rl  162 (329)
T TIGR02974        99 LDELATA--------------SLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALAAEGRFRADLLD--RL  162 (329)
T ss_pred             eCChHhC--------------CHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechhhHHHHhhcCchHHHHHH--Hh
Confidence            9999987              2456677777775321         123578888887532       34455555  66


Q ss_pred             c-ceeecCCCC--HHHHHHHHHHHhcC----CCC-----CCcccHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 007255          453 D-LVLYVPPPD--LEARHEILRVHTRN----MKV-----GDDVDLRSIAEETELFTGAELEGLCREAGIVA  511 (611)
Q Consensus       453 ~-~~i~~~~p~--~~~r~~il~~~~~~----~~~-----~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a  511 (611)
                      . ..|.+|+..  .++...+++.++..    +..     .++..+..|.....--+-+++++++..+...+
T Consensus       163 ~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~ls~~a~~~L~~y~WPGNvrEL~n~i~~~~~~~  233 (329)
T TIGR02974       163 AFDVITLPPLRERQEDIMLLAEHFAIRMARELGLPLFPGFTPQAREQLLEYHWPGNVRELKNVVERSVYRH  233 (329)
T ss_pred             cchhcCCCchhhhhhhHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHhCCCCchHHHHHHHHHHHHHhC
Confidence            4 345554433  13334444443322    111     12333555555553336678888877766543

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.80  E-value=4.9e-08  Score=104.28  Aligned_cols=143  Identities=24%  Similarity=0.307  Sum_probs=88.3

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC----CcEEeec------c
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE----ASFFSLS------G  357 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~----~~~~~~~------~  357 (611)
                      .+.++.|+..+++.+.-.+               ...++++|+||||||||++++.++..+.    ...+.+.      .
T Consensus       189 d~~~v~Gq~~~~~al~laa---------------~~G~~llliG~~GsGKTtLak~L~gllpp~~g~e~le~~~i~s~~g  253 (506)
T PRK09862        189 DLSDVIGQEQGKRGLEITA---------------AGGHNLLLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLVN  253 (506)
T ss_pred             CeEEEECcHHHHhhhheec---------------cCCcEEEEECCCCCcHHHHHHHHhccCCCCCCcEEEecchhhhhhc
Confidence            6778889887776543222               3456899999999999999999997652    1111110      0


Q ss_pred             h-----hh-----ccc--------cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHH
Q 007255          358 A-----EL-----YSM--------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLT  419 (611)
Q Consensus       358 ~-----~~-----~~~--------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~  419 (611)
                      .     .+     ...        ..|.....-...+..   .+..+||+||++.+              ....+..|+.
T Consensus       254 ~~~~~~~~~~rPfr~ph~~~s~~~l~GGg~~~~pG~l~~---A~gGvLfLDEi~e~--------------~~~~~~~L~~  316 (506)
T PRK09862        254 AESVQKQWRQRPFRSPHHSASLTAMVGGGAIPGPGEISL---AHNGVLFLDELPEF--------------ERRTLDALRE  316 (506)
T ss_pred             cccccCCcCCCCccCCCccchHHHHhCCCceehhhHhhh---ccCCEEecCCchhC--------------CHHHHHHHHH
Confidence            0     00     000        111111011112222   23449999999765              3467778887


Q ss_pred             HhcCCC-----------CCCCeEEEEecCCCc---------------------ccchhccCCCCccceeecCCCCHH
Q 007255          420 EMDGLE-----------QAKGILVLAATNRPH---------------------AIDAALMRPGRFDLVLYVPPPDLE  464 (611)
Q Consensus       420 ~l~~~~-----------~~~~~~vI~~tn~~~---------------------~ld~al~r~gRf~~~i~~~~p~~~  464 (611)
                      .|+.-.           ...++.+|+|+|...                     .+..+++.  |||.++.++.|+.+
T Consensus       317 ~LE~g~v~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLD--RfdL~v~v~~~~~~  391 (506)
T PRK09862        317 PIESGQIHLSRTRAKITYPARFQLVAAMNPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLD--RFDLSLEIPLPPPG  391 (506)
T ss_pred             HHHcCcEEEecCCcceeccCCEEEEEeecCccceecCCCCCCcCHHHHHHHHhhCCHhHHh--hccEEEEeCCCCHH
Confidence            775321           134689999999642                     36778888  99999999988643

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=98.80  E-value=8.3e-08  Score=94.39  Aligned_cols=219  Identities=20%  Similarity=0.243  Sum_probs=118.5

Q ss_pred             ccccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC-----
Q 007255            4 KGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG-----   78 (611)
Q Consensus         4 ~~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~-----   78 (611)
                      .-+|.......|      +|...+.+.|...-.. +..|..      .-..++||+|++|.|||++++.+++...     
T Consensus        25 ~eRI~~i~~~rW------IgY~~A~~~L~~L~~L-l~~P~~------~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~   91 (302)
T PF05621_consen   25 EERIAYIRADRW------IGYPRAKEALDRLEEL-LEYPKR------HRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDE   91 (302)
T ss_pred             HHHHHHHhcCCe------ecCHHHHHHHHHHHHH-HhCCcc------cCCCceEEecCCCCcHHHHHHHHHHHCCCCCCC
Confidence            345556666777      6776666555443221 222221      2346899999999999999999987652     


Q ss_pred             ----CcEEEEcccccccc------------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHH
Q 007255           79 ----AHLTVISPHSVHKA------------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRI  142 (611)
Q Consensus        79 ----~~~~~v~~~~~~~~------------~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~  142 (611)
                          .+++.+.+..-.+.            .+.............+.......+.-+|+|||+|.+.....       .-
T Consensus        92 ~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~-------~~  164 (302)
T PF05621_consen   92 DAERIPVVYVQMPPEPDERRFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSY-------RK  164 (302)
T ss_pred             CCccccEEEEecCCCCChHHHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccH-------HH
Confidence                24555543211100            00000011111111222222233467999999999754321       22


Q ss_pred             HHHHHHHHhcCCCCCCCCCcEEEEEeecCcc--cccHHhhccCCcceEEEccCC-CHHHHHHHHHHhhcCCCCCCc----
Q 007255          143 ASQLFTLMDSNKPSKTSVPHVVVVASTNRVD--AIDPALRRSGRFDAEVEVTVP-TAEERFEILKLYTKKVPLDAN----  215 (611)
Q Consensus       143 ~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~--~l~~~l~~~~Rf~~~i~~~~p-~~~~r~~Il~~~~~~~~~~~~----  215 (611)
                      +..+++.+........  -.++.+||..-..  .-|+-+.+  ||. .+.+|.- ..++...++..+....++...    
T Consensus       165 qr~~Ln~LK~L~NeL~--ipiV~vGt~~A~~al~~D~QLa~--RF~-~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~  239 (302)
T PF05621_consen  165 QREFLNALKFLGNELQ--IPIVGVGTREAYRALRTDPQLAS--RFE-PFELPRWELDEEFRRLLASFERALPLRKPSNLA  239 (302)
T ss_pred             HHHHHHHHHHHhhccC--CCeEEeccHHHHHHhccCHHHHh--ccC-CccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCC
Confidence            3444444433222111  1355566543333  33677877  996 5566553 344666677776665554322    


Q ss_pred             --ccHHHHHHhccCCccccHHHHHHHHHHHHhhhc
Q 007255          216 --VDLEAIATSCNGYVGADLEALCREATMSAVKRS  248 (611)
Q Consensus       216 --~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~  248 (611)
                        .-...+-..++|..| ++..++..|+..|++..
T Consensus       240 ~~~la~~i~~~s~G~iG-~l~~ll~~aA~~AI~sG  273 (302)
T PF05621_consen  240 SPELARRIHERSEGLIG-ELSRLLNAAAIAAIRSG  273 (302)
T ss_pred             CHHHHHHHHHHcCCchH-HHHHHHHHHHHHHHhcC
Confidence              224566677887766 47778888888877743

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=98.78  E-value=9.4e-08  Score=98.06  Aligned_cols=193  Identities=17%  Similarity=0.149  Sum_probs=112.2

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc-
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM-  363 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~-  363 (611)
                      .+++++|....-+.+.+.+....           ....++||+|++||||+++|+++....   +.+|+.+++..+... 
T Consensus         4 ~~~~liG~S~~~~~~~~~i~~~a-----------~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~~   72 (326)
T PRK11608          4 YKDNLLGEANSFLEVLEQVSRLA-----------PLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENL   72 (326)
T ss_pred             ccCccEECCHHHHHHHHHHHHHh-----------CCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHHH
Confidence            35678888777777766665321           234569999999999999999998765   468999999876321 


Q ss_pred             ----cccchH-------HHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--C----
Q 007255          364 ----YVGESE-------ALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--Q----  426 (611)
Q Consensus       364 ----~~g~~~-------~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--~----  426 (611)
                          ..|...       ......+.   ......|||||++.+.              ...+..|+..++...  +    
T Consensus        73 ~~~~lfg~~~~~~~g~~~~~~g~l~---~a~gGtL~l~~i~~L~--------------~~~Q~~L~~~l~~~~~~~~g~~  135 (326)
T PRK11608         73 LDSELFGHEAGAFTGAQKRHPGRFE---RADGGTLFLDELATAP--------------MLVQEKLLRVIEYGELERVGGS  135 (326)
T ss_pred             HHHHHccccccccCCcccccCCchh---ccCCCeEEeCChhhCC--------------HHHHHHHHHHHhcCcEEeCCCC
Confidence                001000       00011122   2334599999999882              456677777775321  1    


Q ss_pred             ---CCCeEEEEecCCC-------cccchhccCCCCcc-ceeecCCCCH--HHHHHHHHHHh----cCCCC-----CCccc
Q 007255          427 ---AKGILVLAATNRP-------HAIDAALMRPGRFD-LVLYVPPPDL--EARHEILRVHT----RNMKV-----GDDVD  484 (611)
Q Consensus       427 ---~~~~~vI~~tn~~-------~~ld~al~r~gRf~-~~i~~~~p~~--~~r~~il~~~~----~~~~~-----~~~~~  484 (611)
                         ..++.+|++|+..       ..+.+.|..  ||. ..|.+|+...  ++.-.+++.++    +++..     .++..
T Consensus       136 ~~~~~~~RiI~~s~~~l~~l~~~g~f~~dL~~--~l~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~a  213 (326)
T PRK11608        136 QPLQVNVRLVCATNADLPAMVAEGKFRADLLD--RLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLFPGFTERA  213 (326)
T ss_pred             ceeeccEEEEEeCchhHHHHHHcCCchHHHHH--hcCCCEEECCChhhhhhhHHHHHHHHHHHHHHHhCCCCCCCCCHHH
Confidence               1247888887763       234455665  674 4555544322  23334444433    22221     12233


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHH
Q 007255          485 LRSIAEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       485 ~~~la~~~~g~s~~~i~~~~~~a~~~  510 (611)
                      +..|.....=-+-+++++++..+...
T Consensus       214 l~~L~~y~WPGNvrEL~~vl~~a~~~  239 (326)
T PRK11608        214 RETLLNYRWPGNIRELKNVVERSVYR  239 (326)
T ss_pred             HHHHHhCCCCcHHHHHHHHHHHHHHh
Confidence            45555554433667888888877654

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=98.77  E-value=3.7e-08  Score=101.37  Aligned_cols=205  Identities=22%  Similarity=0.272  Sum_probs=122.9

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA   92 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~   92 (611)
                      ..+..|+|...+...+.+.+..-.           ..+.+|||.|.+||||..+|++|.+..   ..+|+.+||..+...
T Consensus       220 ~~~~~iIG~S~am~~ll~~i~~VA-----------~Sd~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPes  288 (550)
T COG3604         220 LEVGGIIGRSPAMRQLLKEIEVVA-----------KSDSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPES  288 (550)
T ss_pred             cccccceecCHHHHHHHHHHHHHh-----------cCCCeEEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccchH
Confidence            456789999999999988876521           245799999999999999999998876   568999999876532


Q ss_pred             ccc-chHHHHHHHHHHHHhh----hhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCC-----CCCCCCCc
Q 007255           93 HVG-ESEKALREAFSQASSH----ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK-----PSKTSVPH  162 (611)
Q Consensus        93 ~~~-~~~~~l~~~f~~~~~~----~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~-----~~~~~~~~  162 (611)
                      ... +.....+..|.-+...    .....++-||+|||..|..          .++..|+..+.+..     .+.+-.-.
T Consensus       289 LlESELFGHeKGAFTGA~~~r~GrFElAdGGTLFLDEIGelPL----------~lQaKLLRvLQegEieRvG~~r~ikVD  358 (550)
T COG3604         289 LLESELFGHEKGAFTGAINTRRGRFELADGGTLFLDEIGELPL----------ALQAKLLRVLQEGEIERVGGDRTIKVD  358 (550)
T ss_pred             HHHHHHhcccccccccchhccCcceeecCCCeEechhhccCCH----------HHHHHHHHHHhhcceeecCCCceeEEE
Confidence            110 0001112233322211    1122467999999977754          77888998887632     22223346


Q ss_pred             EEEEEeecCcccccHHhhccCCcc-------eEEEccCCCHHHHHH----HHHHhhcC----CCCCC-cc---cHHHHHH
Q 007255          163 VVVVASTNRVDAIDPALRRSGRFD-------AEVEVTVPTAEERFE----ILKLYTKK----VPLDA-NV---DLEAIAT  223 (611)
Q Consensus       163 v~ii~ttn~~~~l~~~l~~~~Rf~-------~~i~~~~p~~~~r~~----Il~~~~~~----~~~~~-~~---~~~~la~  223 (611)
                      |.||++||.  ++...++ .|+|-       .++-+..|...+|..    +..+++++    .+... ..   -++.+..
T Consensus       359 VRiIAATNR--DL~~~V~-~G~FRaDLYyRLsV~Pl~lPPLRER~~DIplLA~~Fle~~~~~~gr~~l~ls~~Al~~L~~  435 (550)
T COG3604         359 VRVIAATNR--DLEEMVR-DGEFRADLYYRLSVFPLELPPLRERPEDIPLLAGYFLEKFRRRLGRAILSLSAEALELLSS  435 (550)
T ss_pred             EEEEeccch--hHHHHHH-cCcchhhhhhcccccccCCCCcccCCccHHHHHHHHHHHHHHhcCCcccccCHHHHHHHHc
Confidence            899999997  3444443 23442       133334444444332    33333332    22211 11   1333332


Q ss_pred             hccCCccccHHHHHHHHHHHH
Q 007255          224 SCNGYVGADLEALCREATMSA  244 (611)
Q Consensus       224 ~~~g~~~~dl~~l~~~a~~~a  244 (611)
                      ..---+-+++++++..|+..+
T Consensus       436 y~wPGNVRELen~veRavlla  456 (550)
T COG3604         436 YEWPGNVRELENVVERAVLLA  456 (550)
T ss_pred             CCCCCcHHHHHHHHHHHHHHh
Confidence            221124488999999999877

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=98.77  E-value=5.4e-08  Score=89.50  Aligned_cols=98  Identities=21%  Similarity=0.332  Sum_probs=63.5

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcccc-----ccch-------HHHHHHHHHHHHhcCCcEEE
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMY-----VGES-------EALLRNTFQRARLAAPSIIF  388 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~-----~g~~-------~~~~~~~~~~a~~~~p~il~  388 (611)
                      +.++||+|++||||+.+|+++.+..   +.+|+.++++.+....     .|..       ...-..++..|   ....||
T Consensus        22 ~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~LFG~~~~~~~~~~~~~~G~l~~A---~~GtL~   98 (168)
T PF00158_consen   22 DLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESELFGHEKGAFTGARSDKKGLLEQA---NGGTLF   98 (168)
T ss_dssp             TS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHHHHEBCSSSSTTTSSEBEHHHHHT---TTSEEE
T ss_pred             CCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhhhhccccccccccccccCCceeec---cceEEe
Confidence            3579999999999999999999876   5799999998764321     0100       00011233333   344999


Q ss_pred             EcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--C-------CCCeEEEEecCC
Q 007255          389 FDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--Q-------AKGILVLAATNR  438 (611)
Q Consensus       389 iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--~-------~~~~~vI~~tn~  438 (611)
                      ||||+.+              ...++..|+..|+.-.  +       .-++.+|++|+.
T Consensus        99 Ld~I~~L--------------~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~  143 (168)
T PF00158_consen   99 LDEIEDL--------------PPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSK  143 (168)
T ss_dssp             EETGGGS---------------HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS
T ss_pred             ecchhhh--------------HHHHHHHHHHHHhhchhccccccccccccceEEeecCc
Confidence            9999988              3567788888876311  1       126889988885

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>PRK08116 hypothetical protein; Validated

Probab=98.77  E-value=1.3e-08  Score=101.06  Aligned_cols=123  Identities=14%  Similarity=0.093  Sum_probs=73.9

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcccccc----chHHHHHHHHHHHHhcCCcEEEEccccccc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVG----ESEALLRNTFQRARLAAPSIIFFDEADVVG  396 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g----~~~~~~~~~~~~a~~~~p~il~iDeid~l~  396 (611)
                      ..+++|+|++|||||+||.++|+++   +.+++.++.+++...+..    ........+++..  ...++|+|||++..-
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l--~~~dlLviDDlg~e~  191 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKSTYKSSGKEDENEIIRSL--VNADLLILDDLGAER  191 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhccccccHHHHHHHh--cCCCEEEEecccCCC
Confidence            3579999999999999999999986   788888888887654321    1111122233322  244599999995421


Q ss_pred             ccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCC-cc----cchhccCCCCc---cceeecCCCCH
Q 007255          397 AKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP-HA----IDAALMRPGRF---DLVLYVPPPDL  463 (611)
Q Consensus       397 ~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~-~~----ld~al~r~gRf---~~~i~~~~p~~  463 (611)
                                  ........|...++.....+.. +|.|||.+ ++    ++..+..  |+   ...|.++.||.
T Consensus       192 ------------~t~~~~~~l~~iin~r~~~~~~-~IiTsN~~~~eL~~~~~~ri~s--Rl~e~~~~v~~~g~d~  251 (268)
T PRK08116        192 ------------DTEWAREKVYNIIDSRYRKGLP-TIVTTNLSLEELKNQYGKRIYD--RILEMCTPVENEGKSY  251 (268)
T ss_pred             ------------CCHHHHHHHHHHHHHHHHCCCC-EEEECCCCHHHHHHHHhHHHHH--HHHHcCEEEEeeCcCh
Confidence                        1123345555555543333333 55577764 34    3555555  54   23466666665

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=98.76  E-value=3.1e-07  Score=98.12  Aligned_cols=201  Identities=23%  Similarity=0.280  Sum_probs=119.6

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC----------CcEEEEccccc
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG----------AHLTVISPHSV   89 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~----------~~~~~v~~~~~   89 (611)
                      .+.+.+.....|..++...+...        .....+.+.|-||||||..++.+.++|.          ..++++|+-.+
T Consensus       397 sLpcRe~E~~~I~~f~~~~i~~~--------~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l  468 (767)
T KOG1514|consen  397 SLPCRENEFSEIEDFLRSFISDQ--------GLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRL  468 (767)
T ss_pred             cccchhHHHHHHHHHHHhhcCCC--------CCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceee
Confidence            34556666666666665432220        1224799999999999999999998763          35677776544


Q ss_pred             cc----------ccccchH------HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcC
Q 007255           90 HK----------AHVGESE------KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN  153 (611)
Q Consensus        90 ~~----------~~~~~~~------~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~  153 (611)
                      ..          ...|+..      ..+...|.   .......++|++|||.|.|....          +.-|+++++--
T Consensus       469 ~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~---~~k~~~~~~VvLiDElD~Lvtr~----------QdVlYn~fdWp  535 (767)
T KOG1514|consen  469 ASPREIYEKIWEALSGERVTWDAALEALNFRFT---VPKPKRSTTVVLIDELDILVTRS----------QDVLYNIFDWP  535 (767)
T ss_pred             cCHHHHHHHHHHhcccCcccHHHHHHHHHHhhc---cCCCCCCCEEEEeccHHHHhccc----------HHHHHHHhcCC
Confidence            32          1122211      22333333   11124468999999999997632          45566666542


Q ss_pred             CCCCCCCCcEEEEEeecCcc----cccHHhhccCCcc-eEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCC
Q 007255          154 KPSKTSVPHVVVVASTNRVD----AIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGY  228 (611)
Q Consensus       154 ~~~~~~~~~v~ii~ttn~~~----~l~~~l~~~~Rf~-~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~  228 (611)
                      ..   ...+++||+..|..+    .+...+.+  |.+ ..+.|.+++-.++++|+...++......+.-++.++......
T Consensus       536 t~---~~sKLvvi~IaNTmdlPEr~l~nrvsS--Rlg~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAav  610 (767)
T KOG1514|consen  536 TL---KNSKLVVIAIANTMDLPERLLMNRVSS--RLGLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAV  610 (767)
T ss_pred             cC---CCCceEEEEecccccCHHHHhccchhh--hccceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhc
Confidence            21   233678888877754    22333334  443 479999999999999999998877433332344444443333


Q ss_pred             cc--ccHHHHHHHHHHHHhh
Q 007255          229 VG--ADLEALCREATMSAVK  246 (611)
Q Consensus       229 ~~--~dl~~l~~~a~~~a~~  246 (611)
                      +|  +....+|+.|...+-.
T Consensus       611 SGDaRraldic~RA~Eia~~  630 (767)
T KOG1514|consen  611 SGDARRALDICRRAAEIAEE  630 (767)
T ss_pred             cccHHHHHHHHHHHHHHhhh
Confidence            33  2334556666544433

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.76  E-value=2.9e-07  Score=99.11  Aligned_cols=213  Identities=19%  Similarity=0.259  Sum_probs=124.8

Q ss_pred             ccccccc------ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255            9 SEHNEKW------KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus         9 ~~~~~~~------~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      ...+..|      +.+++++-..+-+++++.++.....        +....+-+||+||||||||+.++.+|++++..+.
T Consensus         3 ~~~~~~W~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~--------~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~   74 (519)
T PF03215_consen    3 DDESEPWVEKYAPKTLDELAVHKKKVEEVRSWLEEMFS--------GSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQ   74 (519)
T ss_pred             CcccCccchhcCCCCHHHhhccHHHHHHHHHHHHHHhc--------cCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeE
Confidence            3455666      7889999999999999999875322        2234568899999999999999999999999887


Q ss_pred             EEccccc-c------cccccch---------HHHHHHH-HHHHHhhh-------hcCCCeEEEEccccccCCCCCCCchh
Q 007255           83 VISPHSV-H------KAHVGES---------EKALREA-FSQASSHA-------LSGKPSVVFIDEIDALCPRRDHRREQ  138 (611)
Q Consensus        83 ~v~~~~~-~------~~~~~~~---------~~~l~~~-f~~~~~~~-------~~~~~~il~IDeid~l~~~~~~~~~~  138 (611)
                      +...... .      ..+.+..         ...+..+ +.......       ...++.||+|||+=.++...      
T Consensus        75 Ew~np~~~~~~~~~~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~~~------  148 (519)
T PF03215_consen   75 EWINPVSFRESDNQEDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFHRD------  148 (519)
T ss_pred             EecCCCCccccccccccccccccccccccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccchh------
Confidence            7532211 0      0111100         0112221 11111100       11356799999986554321      


Q ss_pred             hHHHHHHHHHHHhcCCCCCCCCCcEEEEEe-ec------Cc--------ccccHHhhccCCcceEEEccCCCHHHHHHHH
Q 007255          139 DVRIASQLFTLMDSNKPSKTSVPHVVVVAS-TN------RV--------DAIDPALRRSGRFDAEVEVTVPTAEERFEIL  203 (611)
Q Consensus       139 ~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t-tn------~~--------~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il  203 (611)
                      ...+...|..++.....    . +++||.| +.      ..        .-+++.+....++ ..|.|.+-+..-+.+.|
T Consensus       149 ~~~f~~~L~~~l~~~~~----~-PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i-~~I~FNpIa~T~mkKaL  222 (519)
T PF03215_consen  149 TSRFREALRQYLRSSRC----L-PLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGI-TRIKFNPIAPTFMKKAL  222 (519)
T ss_pred             HHHHHHHHHHHHHcCCC----C-CEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCc-eEEEecCCCHHHHHHHH
Confidence            13455555555553221    1 3555555 21      11        1356777764454 48999999998887777


Q ss_pred             HHhhcCC--------CCCCcc-cHHHHHHhccCCccccHHHHHHHHHHHHh
Q 007255          204 KLYTKKV--------PLDANV-DLEAIATSCNGYVGADLEALCREATMSAV  245 (611)
Q Consensus       204 ~~~~~~~--------~~~~~~-~~~~la~~~~g~~~~dl~~l~~~a~~~a~  245 (611)
                      +..+...        ...... .++.++..+.    +||+..+......+.
T Consensus       223 ~rI~~~E~~~~~~~~~~p~~~~~l~~I~~~s~----GDIRsAIn~LQf~~~  269 (519)
T PF03215_consen  223 KRILKKEARSSSGKNKVPDKQSVLDSIAESSN----GDIRSAINNLQFWCL  269 (519)
T ss_pred             HHHHHHHhhhhcCCccCCChHHHHHHHHHhcC----chHHHHHHHHHHHhc
Confidence            7665432        111112 2666666544    577777665554444

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.76  E-value=4.7e-08  Score=95.14  Aligned_cols=69  Identities=20%  Similarity=0.275  Sum_probs=50.5

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccch---HHHHHHHHHHHHhcCCcEEEEcccccc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGES---EALLRNTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~a~~~~p~il~iDeid~l  395 (611)
                      .+++|+||||||||+|+.++|+++   +..++.++.+++........   ......+++..  ...++|+|||++..
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l~~~~~~~~~~~~~~l~~l--~~~dlLvIDDig~~  174 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAMKDTFSNSETSEEQLLNDL--SNVDLLVIDEIGVQ  174 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHHHHHHhhccccHHHHHHHh--ccCCEEEEeCCCCC
Confidence            479999999999999999999988   77888888888876433211   11222344333  35679999999765

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.75  E-value=3e-08  Score=109.11  Aligned_cols=204  Identities=19%  Similarity=0.213  Sum_probs=121.6

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcc
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS  362 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~  362 (611)
                      ..+++.++|.....+.+.+.+....           .....+||+|++||||+++|+++....   +.+|+.+++..+..
T Consensus       192 ~~~~~~liG~s~~~~~~~~~~~~~a-----------~~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~  260 (534)
T TIGR01817       192 SGKEDGIIGKSPAMRQVVDQARVVA-----------RSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSE  260 (534)
T ss_pred             cCccCceEECCHHHHHHHHHHHHHh-----------CcCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCH
Confidence            3568899999888887777766421           234569999999999999999999875   57999999987633


Q ss_pred             ccccchHHHHHHHHHH---------------HHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--
Q 007255          363 MYVGESEALLRNTFQR---------------ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--  425 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~---------------a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--  425 (611)
                      ..      .-..+|..               .......+||||||+.+.              ...+..|+..++.-.  
T Consensus       261 ~~------~~~~lfg~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~--------------~~~Q~~Ll~~l~~~~~~  320 (534)
T TIGR01817       261 TL------LESELFGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEIS--------------PAFQAKLLRVLQEGEFE  320 (534)
T ss_pred             HH------HHHHHcCCCCCccCCCCcCCCCcccccCCCeEEEechhhCC--------------HHHHHHHHHHHhcCcEE
Confidence            11      00111110               111234599999999882              456677777775321  


Q ss_pred             C-------CCCeEEEEecCCCc-------ccchhccCCCCcc-ceeecCCCC--HHHHHHHHHHHhcCC----CC---CC
Q 007255          426 Q-------AKGILVLAATNRPH-------AIDAALMRPGRFD-LVLYVPPPD--LEARHEILRVHTRNM----KV---GD  481 (611)
Q Consensus       426 ~-------~~~~~vI~~tn~~~-------~ld~al~r~gRf~-~~i~~~~p~--~~~r~~il~~~~~~~----~~---~~  481 (611)
                      +       .-++.+|++|+..-       .+.+.|..  |+. ..|.+|+..  .++...|++.++..+    ..   .+
T Consensus       321 ~~~~~~~~~~~~riI~~s~~~l~~~~~~~~f~~~L~~--rl~~~~i~lPpLreR~eDi~~L~~~~l~~~~~~~~~~~~~s  398 (534)
T TIGR01817       321 RVGGNRTLKVDVRLVAATNRDLEEAVAKGEFRADLYY--RINVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRPLTIT  398 (534)
T ss_pred             ECCCCceEeecEEEEEeCCCCHHHHHHcCCCCHHHHH--HhcCCeeeCCCcccccccHHHHHHHHHHHHHHHcCCCCCCC
Confidence            1       11477888887542       12233333  443 345565443  234445555444322    11   12


Q ss_pred             cccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHH
Q 007255          482 DVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQ  527 (611)
Q Consensus       482 ~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~  527 (611)
                      +..+..|.....--+-++++++++.+...+-     ...|+.+|+.
T Consensus       399 ~~a~~~L~~~~WPGNvrEL~~v~~~a~~~~~-----~~~I~~~~l~  439 (534)
T TIGR01817       399 PSAIRVLMSCKWPGNVRELENCLERTATLSR-----SGTITRSDFS  439 (534)
T ss_pred             HHHHHHHHhCCCCChHHHHHHHHHHHHHhCC-----CCcccHHHCc
Confidence            2335556665543367888888887765432     2345555543

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=98.74  E-value=1.9e-07  Score=93.71  Aligned_cols=127  Identities=14%  Similarity=0.122  Sum_probs=91.8

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCc-------------EEeecchhhccccccchHHHHHHHHHHHHh-----cC
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEAS-------------FFSLSGAELYSMYVGESEALLRNTFQRARL-----AA  383 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~-----~~  383 (611)
                      ..++.+||+|+.|+||+.+|+.+|+.+.|.             +..++..   +..  -.-..++.+.+....     ..
T Consensus        16 ~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~---g~~--i~vd~Ir~l~~~~~~~~~~~~~   90 (299)
T PRK07132         16 KISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIF---DKD--LSKSEFLSAINKLYFSSFVQSQ   90 (299)
T ss_pred             CCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccC---CCc--CCHHHHHHHHHHhccCCcccCC
Confidence            456789999999999999999999988442             1111100   000  112344455444421     24


Q ss_pred             CcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCH
Q 007255          384 PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDL  463 (611)
Q Consensus       384 p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~  463 (611)
                      ..|++||++|.+              +....+.||+.|+  ++++.+++|.+|+.++.+-+.+.+  |+. ++.|++|+.
T Consensus        91 ~KvvII~~~e~m--------------~~~a~NaLLK~LE--EPp~~t~~il~~~~~~kll~TI~S--Rc~-~~~f~~l~~  151 (299)
T PRK07132         91 KKILIIKNIEKT--------------SNSLLNALLKTIE--EPPKDTYFLLTTKNINKVLPTIVS--RCQ-VFNVKEPDQ  151 (299)
T ss_pred             ceEEEEeccccc--------------CHHHHHHHHHHhh--CCCCCeEEEEEeCChHhChHHHHh--CeE-EEECCCCCH
Confidence            459999999876              3557799999999  688888999888899999888887  887 899999998


Q ss_pred             HHHHHHHHH
Q 007255          464 EARHEILRV  472 (611)
Q Consensus       464 ~~r~~il~~  472 (611)
                      ++..+.+..
T Consensus       152 ~~l~~~l~~  160 (299)
T PRK07132        152 QKILAKLLS  160 (299)
T ss_pred             HHHHHHHHH
Confidence            888877663

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.74  E-value=6e-08  Score=109.23  Aligned_cols=198  Identities=16%  Similarity=0.212  Sum_probs=114.0

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA   92 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~   92 (611)
                      ..|++++|.....+.+.+.+...           .....+|||+|++||||+++|+++.+..   +.+|+.++|..+...
T Consensus       322 ~~~~~l~g~s~~~~~~~~~~~~~-----------a~~~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~  390 (638)
T PRK11388        322 HTFDHMPQDSPQMRRLIHFGRQA-----------AKSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDE  390 (638)
T ss_pred             ccccceEECCHHHHHHHHHHHHH-----------hCcCCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChH
Confidence            35778888888777776665432           1245689999999999999999998875   468999999876421


Q ss_pred             cccchHHHHHHHHHHH---Hh-----hhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC-----CC
Q 007255           93 HVGESEKALREAFSQA---SS-----HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK-----TS  159 (611)
Q Consensus        93 ~~~~~~~~l~~~f~~~---~~-----~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-----~~  159 (611)
                      ..      -..+|...   ..     ......++.|||||++.|..          ..+..|+..++......     ..
T Consensus       391 ~~------~~elfg~~~~~~~~~~~g~~~~a~~GtL~ldei~~l~~----------~~Q~~Ll~~l~~~~~~~~~~~~~~  454 (638)
T PRK11388        391 AL------AEEFLGSDRTDSENGRLSKFELAHGGTLFLEKVEYLSP----------ELQSALLQVLKTGVITRLDSRRLI  454 (638)
T ss_pred             HH------HHHhcCCCCcCccCCCCCceeECCCCEEEEcChhhCCH----------HHHHHHHHHHhcCcEEeCCCCceE
Confidence            10      11122111   00     01123467999999998865          67888888887643211     11


Q ss_pred             CCcEEEEEeecCc-------ccccHHhhccCCcceEEEccCCCHHHH----HHHHHHhhcCC----CCCCccc---HHHH
Q 007255          160 VPHVVVVASTNRV-------DAIDPALRRSGRFDAEVEVTVPTAEER----FEILKLYTKKV----PLDANVD---LEAI  221 (611)
Q Consensus       160 ~~~v~ii~ttn~~-------~~l~~~l~~~~Rf~~~i~~~~p~~~~r----~~Il~~~~~~~----~~~~~~~---~~~l  221 (611)
                      +.++.+|++|+..       ..+.+.+.-  |+. .+.+..|...+|    ..++++++...    .......   +..+
T Consensus       455 ~~~~riI~~t~~~l~~~~~~~~f~~dL~~--~l~-~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~s~~a~~~L  531 (638)
T PRK11388        455 PVDVRVIATTTADLAMLVEQNRFSRQLYY--ALH-AFEITIPPLRMRREDIPALVNNKLRSLEKRFSTRLKIDDDALARL  531 (638)
T ss_pred             EeeEEEEEeccCCHHHHHhcCCChHHHhh--hhc-eeEEeCCChhhhhhHHHHHHHHHHHHHHHHhCCCCCcCHHHHHHH
Confidence            1257888888863       123333332  442 345555555544    34455554322    1111111   2333


Q ss_pred             HHhccCCccccHHHHHHHHHHH
Q 007255          222 ATSCNGYVGADLEALCREATMS  243 (611)
Q Consensus       222 a~~~~g~~~~dl~~l~~~a~~~  243 (611)
                      ....=--+-++|+++++.++..
T Consensus       532 ~~y~WPGNvreL~~~l~~~~~~  553 (638)
T PRK11388        532 VSYRWPGNDFELRSVIENLALS  553 (638)
T ss_pred             HcCCCCChHHHHHHHHHHHHHh
Confidence            2221112346788888776653

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=98.74  E-value=5e-08  Score=94.92  Aligned_cols=170  Identities=18%  Similarity=0.225  Sum_probs=116.3

Q ss_pred             ccccccc------ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc--
Q 007255            9 SEHNEKW------KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--   80 (611)
Q Consensus         9 ~~~~~~~------~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~--   80 (611)
                      ..++..|      ..+.+++++++....+++....             ..-.|.|+|||||||||+.+.+.|+.+-.+  
T Consensus        25 ~~~~~pwvekyrP~~l~dv~~~~ei~st~~~~~~~-------------~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~   91 (360)
T KOG0990|consen   25 PQYPQPWVEKYRPPFLGIVIKQEPIWSTENRYSGM-------------PGLPHLLFYGPPGTGKTSTILANARDFYSPHP   91 (360)
T ss_pred             cccCCCCccCCCCchhhhHhcCCchhhHHHHhccC-------------CCCCcccccCCCCCCCCCchhhhhhhhcCCCC
Confidence            4556666      6788999999999999887432             122399999999999999999999998653  


Q ss_pred             ----EEEEcccccccccccchHHHHHHHHHHHHhhhh-c--CCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcC
Q 007255           81 ----LTVISPHSVHKAHVGESEKALREAFSQASSHAL-S--GKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN  153 (611)
Q Consensus        81 ----~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~-~--~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~  153 (611)
                          +...++++-..  . ...+.-...|....+... +  .....+++||+|.+..          ..+++|.+.++.+
T Consensus        92 ~~~m~lelnaSd~rg--i-d~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~----------~AQnALRRviek~  158 (360)
T KOG0990|consen   92 TTSMLLELNASDDRG--I-DPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTR----------DAQNALRRVIEKY  158 (360)
T ss_pred             chhHHHHhhccCccC--C-cchHHHHHHHHhhccceeccccCceeEEEecchhHhhH----------HHHHHHHHHHHHh
Confidence                11223322111  1 112222233444332111 1  1356899999998854          5678888777664


Q ss_pred             CCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC
Q 007255          154 KPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD  213 (611)
Q Consensus       154 ~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~  213 (611)
                      ..      ++.|...+|++..+.|++++  ||. .+.|.+.+..+....+.+.++.-...
T Consensus       159 t~------n~rF~ii~n~~~ki~pa~qs--Rct-rfrf~pl~~~~~~~r~shi~e~e~~~  209 (360)
T KOG0990|consen  159 TA------NTRFATISNPPQKIHPAQQS--RCT-RFRFAPLTMAQQTERQSHIRESEQKE  209 (360)
T ss_pred             cc------ceEEEEeccChhhcCchhhc--ccc-cCCCCCCChhhhhhHHHHHHhcchhh
Confidence            43      35566778999999999998  886 78888889888888888887654433

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.74  E-value=4e-08  Score=100.83  Aligned_cols=198  Identities=21%  Similarity=0.205  Sum_probs=120.4

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----CCcEEeecchhhc
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELY  361 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~~~~~~  361 (611)
                      ...+++++|....-+.+.+.+..           -.+...++|++|++||||+.+|+++....    +.||+.+||+.+.
T Consensus        74 ~~~~~~LIG~~~~~~~~~eqik~-----------~ap~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~  142 (403)
T COG1221          74 SEALDDLIGESPSLQELREQIKA-----------YAPSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYS  142 (403)
T ss_pred             chhhhhhhccCHHHHHHHHHHHh-----------hCCCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhC
Confidence            44678899988777777776653           11334579999999999999999997443    6799999998876


Q ss_pred             cc-------------cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC---
Q 007255          362 SM-------------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE---  425 (611)
Q Consensus       362 ~~-------------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---  425 (611)
                      ..             |.| ....-..+|+.|.   ...||+|||+.+-              ......|+..||..+   
T Consensus       143 en~~~~eLFG~~kGaftG-a~~~k~Glfe~A~---GGtLfLDEI~~LP--------------~~~Q~kLl~~le~g~~~r  204 (403)
T COG1221         143 ENLQEAELFGHEKGAFTG-AQGGKAGLFEQAN---GGTLFLDEIHRLP--------------PEGQEKLLRVLEEGEYRR  204 (403)
T ss_pred             cCHHHHHHhccccceeec-ccCCcCchheecC---CCEEehhhhhhCC--------------HhHHHHHHHHHHcCceEe
Confidence            53             122 1112223343332   3499999999883              446677888887521   


Q ss_pred             ------CCCCeEEEEecCC--Ccccch--hccCCCCccceeecCCCCH--HHHHHHHHHHh----cCCCCC--Ccc--cH
Q 007255          426 ------QAKGILVLAATNR--PHAIDA--ALMRPGRFDLVLYVPPPDL--EARHEILRVHT----RNMKVG--DDV--DL  485 (611)
Q Consensus       426 ------~~~~~~vI~~tn~--~~~ld~--al~r~gRf~~~i~~~~p~~--~~r~~il~~~~----~~~~~~--~~~--~~  485 (611)
                            ....+.+|+|||.  ++.+-.  .+.| -|+...|.+|+...  +++..+++.++    ++....  ...  .+
T Consensus       205 vG~~~~~~~dVRli~AT~~~l~~~~~~g~dl~~-rl~~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~  283 (403)
T COG1221         205 VGGSQPRPVDVRLICATTEDLEEAVLAGADLTR-RLNILTITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEAL  283 (403)
T ss_pred             cCCCCCcCCCceeeeccccCHHHHHHhhcchhh-hhcCceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHH
Confidence                  2346888888874  223333  4443 14445555554333  23333444333    333332  222  13


Q ss_pred             HHHHHh-CCCCCHHHHHHHHHHHHHHHHHh
Q 007255          486 RSIAEE-TELFTGAELEGLCREAGIVALRE  514 (611)
Q Consensus       486 ~~la~~-~~g~s~~~i~~~~~~a~~~a~~~  514 (611)
                      ..|-.. ..| +-++++++++.+...+...
T Consensus       284 ~~L~~y~~pG-NirELkN~Ve~~~~~~~~~  312 (403)
T COG1221         284 RALLAYDWPG-NIRELKNLVERAVAQASGE  312 (403)
T ss_pred             HHHHhCCCCC-cHHHHHHHHHHHHHHhccc
Confidence            333332 345 6789999999888877544

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=98.72  E-value=3.4e-07  Score=88.05  Aligned_cols=88  Identities=22%  Similarity=0.250  Sum_probs=62.9

Q ss_pred             CcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCc-ccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcc
Q 007255          439 PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDD-VDLRSIAEETELFTGAELEGLCREAGIVALREDIS  517 (611)
Q Consensus       439 ~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~  517 (611)
                      |+-++-.|+.  |.- +|...+++.++..+||++.+....+.-+ ..++.|......-|-+...+++..|...+.++.  
T Consensus       339 phGiP~D~lD--R~l-II~t~py~~~d~~~IL~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk--  413 (454)
T KOG2680|consen  339 PHGIPIDLLD--RML-IISTQPYTEEDIKKILRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRK--  413 (454)
T ss_pred             CCCCcHHHhh--hhh-eeecccCcHHHHHHHHHhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhc--
Confidence            5567778887  765 7777789999999999988876655533 345666666666666777777777777777775  


Q ss_pred             cccccHHHHHHHHh
Q 007255          518 ATAVRNRHFQTVKD  531 (611)
Q Consensus       518 ~~~i~~~~~~~~l~  531 (611)
                      .+.+..+|+..+.+
T Consensus       414 ~~~v~~~di~r~y~  427 (454)
T KOG2680|consen  414 GKVVEVDDIERVYR  427 (454)
T ss_pred             CceeehhHHHHHHH
Confidence            45566677776654

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=98.71  E-value=2.4e-07  Score=101.18  Aligned_cols=194  Identities=21%  Similarity=0.211  Sum_probs=116.0

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcccc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMY  364 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~  364 (611)
                      ...+++|.....+.+.+.+...           .....++||+|++||||+++|+++....   +.+|+.+++..+....
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~-----------a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~~  253 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVV-----------AASDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESL  253 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChHH
Confidence            3567888888777777776641           1234579999999999999999999875   5799999988764310


Q ss_pred             -----ccchH----HH---HHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-------
Q 007255          365 -----VGESE----AL---LRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-------  425 (611)
Q Consensus       365 -----~g~~~----~~---~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-------  425 (611)
                           .|...    ..   -...|..   .....||||||+.+.              ...+..|+..++.-.       
T Consensus       254 ~e~~lfG~~~g~~~ga~~~~~g~~~~---a~gGtL~ldeI~~L~--------------~~~Q~~Ll~~l~~~~~~~~g~~  316 (509)
T PRK05022        254 AESELFGHVKGAFTGAISNRSGKFEL---ADGGTLFLDEIGELP--------------LALQAKLLRVLQYGEIQRVGSD  316 (509)
T ss_pred             HHHHhcCccccccCCCcccCCcchhh---cCCCEEEecChhhCC--------------HHHHHHHHHHHhcCCEeeCCCC
Confidence                 01000    00   0011222   335589999999882              456677777775321       


Q ss_pred             --CCCCeEEEEecCCCc-------ccchhccCCCCccceeecCCCCHHHHH----HHHHHHhcC----CCC----CCccc
Q 007255          426 --QAKGILVLAATNRPH-------AIDAALMRPGRFDLVLYVPPPDLEARH----EILRVHTRN----MKV----GDDVD  484 (611)
Q Consensus       426 --~~~~~~vI~~tn~~~-------~ld~al~r~gRf~~~i~~~~p~~~~r~----~il~~~~~~----~~~----~~~~~  484 (611)
                        ..-++.+|++|+..-       .+.+.|..  |+. .+.+..|...+|.    .+++.++++    +..    .++..
T Consensus       317 ~~~~~~~RiI~~t~~~l~~~~~~~~f~~dL~~--rl~-~~~i~lPpLreR~eDI~~L~~~fl~~~~~~~~~~~~~~s~~a  393 (509)
T PRK05022        317 RSLRVDVRVIAATNRDLREEVRAGRFRADLYH--RLS-VFPLSVPPLRERGDDVLLLAGYFLEQNRARLGLRSLRLSPAA  393 (509)
T ss_pred             cceecceEEEEecCCCHHHHHHcCCccHHHHh--ccc-ccEeeCCCchhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHH
Confidence              112578888887642       23333433  443 3344455555543    333333322    211    12233


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 007255          485 LRSIAEETELFTGAELEGLCREAGIVAL  512 (611)
Q Consensus       485 ~~~la~~~~g~s~~~i~~~~~~a~~~a~  512 (611)
                      +..|.....=-+-+++++++..+...+.
T Consensus       394 ~~~L~~y~WPGNvrEL~~~i~ra~~~~~  421 (509)
T PRK05022        394 QAALLAYDWPGNVRELEHVISRAALLAR  421 (509)
T ss_pred             HHHHHhCCCCCcHHHHHHHHHHHHHhcC
Confidence            5555555543377899999998877654

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=98.71  E-value=5.3e-07  Score=96.35  Aligned_cols=196  Identities=18%  Similarity=0.276  Sum_probs=127.1

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh----------CCcEEeecchhhccc----------cccchHH------HHHHHHHH
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSGAELYSM----------YVGESEA------LLRNTFQR  378 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~~~~~~~~~----------~~g~~~~------~~~~~~~~  378 (611)
                      ..+.+.|-||||||+.++.+-.++          ...++.+++-.+.+.          +.|+...      .+..-|..
T Consensus       423 ~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~  502 (767)
T KOG1514|consen  423 SCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEKIWEALSGERVTWDAALEALNFRFTV  502 (767)
T ss_pred             eeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHHHHHhcccCcccHHHHHHHHHHhhcc
Confidence            357889999999999999999866          356788887655442          2332211      11112221


Q ss_pred             H-HhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC-CCCCCeEEEEecCCCcccchhcc-C-CCCcc-
Q 007255          379 A-RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL-EQAKGILVLAATNRPHAIDAALM-R-PGRFD-  453 (611)
Q Consensus       379 a-~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~-~~~~~~~vI~~tn~~~~ld~al~-r-~gRf~-  453 (611)
                      . ....++||+|||.|.|+...           .   .-|.+.+|-. .+..+++||+..|.-+....-+. | .+|++ 
T Consensus       503 ~k~~~~~~VvLiDElD~Lvtr~-----------Q---dVlYn~fdWpt~~~sKLvvi~IaNTmdlPEr~l~nrvsSRlg~  568 (767)
T KOG1514|consen  503 PKPKRSTTVVLIDELDILVTRS-----------Q---DVLYNIFDWPTLKNSKLVVIAIANTMDLPERLLMNRVSSRLGL  568 (767)
T ss_pred             CCCCCCCEEEEeccHHHHhccc-----------H---HHHHHHhcCCcCCCCceEEEEecccccCHHHHhccchhhhccc
Confidence            1 12346799999999997442           2   3344444432 35668889988887654333222 1 13666 


Q ss_pred             ceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCC--HHHHHHHHHHHHHHHHHhhc-----ccccccHHHH
Q 007255          454 LVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFT--GAELEGLCREAGIVALREDI-----SATAVRNRHF  526 (611)
Q Consensus       454 ~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s--~~~i~~~~~~a~~~a~~~~~-----~~~~i~~~~~  526 (611)
                      ..|.|.+++..+..+|+...+.+........++-+|+.-...|  .+....+|+.|...|-.+..     ....+...|+
T Consensus       569 tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~RA~Eia~~~~~~~k~~~~q~v~~~~v  648 (767)
T KOG1514|consen  569 TRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICRRAAEIAEERNVKGKLAVSQLVGILHV  648 (767)
T ss_pred             eeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHHHHHHHhhhhcccccccccceeehHHH
Confidence            6889999999999999998888875544444455554433333  45667789999888877765     1235788888


Q ss_pred             HHHHhhcC
Q 007255          527 QTVKDSLK  534 (611)
Q Consensus       527 ~~~l~~~~  534 (611)
                      .+|+..+-
T Consensus       649 ~~Ai~em~  656 (767)
T KOG1514|consen  649 MEAINEML  656 (767)
T ss_pred             HHHHHHHh
Confidence            88887653

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.70  E-value=1.6e-07  Score=105.72  Aligned_cols=206  Identities=16%  Similarity=0.177  Sum_probs=119.8

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcc
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS  362 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~  362 (611)
                      ..+|++++|.....+.+.+.+....           .....+||+|++||||+++|+++.+..   +.+|+.++++.+..
T Consensus       321 ~~~~~~l~g~s~~~~~~~~~~~~~a-----------~~~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~  389 (638)
T PRK11388        321 SHTFDHMPQDSPQMRRLIHFGRQAA-----------KSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPD  389 (638)
T ss_pred             cccccceEECCHHHHHHHHHHHHHh-----------CcCCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCCh
Confidence            3468888888776666665554311           223469999999999999999999876   47999999876632


Q ss_pred             ccccchHHHHHHHHHH------------HHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--CC-
Q 007255          363 MYVGESEALLRNTFQR------------ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--QA-  427 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~------------a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--~~-  427 (611)
                      .      ..-..+|..            ........||||||+.+              ...++..|+..++.-.  +. 
T Consensus       390 ~------~~~~elfg~~~~~~~~~~~g~~~~a~~GtL~ldei~~l--------------~~~~Q~~Ll~~l~~~~~~~~~  449 (638)
T PRK11388        390 E------ALAEEFLGSDRTDSENGRLSKFELAHGGTLFLEKVEYL--------------SPELQSALLQVLKTGVITRLD  449 (638)
T ss_pred             H------HHHHHhcCCCCcCccCCCCCceeECCCCEEEEcChhhC--------------CHHHHHHHHHHHhcCcEEeCC
Confidence            1      001112210            11123569999999987              2456677777775321  11 


Q ss_pred             ------CCeEEEEecCCCc-------ccchhccCCCCccceeecCCCCHHHHH----HHHHHHhcCC----C--C-CCcc
Q 007255          428 ------KGILVLAATNRPH-------AIDAALMRPGRFDLVLYVPPPDLEARH----EILRVHTRNM----K--V-GDDV  483 (611)
Q Consensus       428 ------~~~~vI~~tn~~~-------~ld~al~r~gRf~~~i~~~~p~~~~r~----~il~~~~~~~----~--~-~~~~  483 (611)
                            -++.+|+||+..-       .+.+.|.-  |+. .+.+..|...+|.    .+++.++..+    .  + .++.
T Consensus       450 ~~~~~~~~~riI~~t~~~l~~~~~~~~f~~dL~~--~l~-~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~s~~  526 (638)
T PRK11388        450 SRRLIPVDVRVIATTTADLAMLVEQNRFSRQLYY--ALH-AFEITIPPLRMRREDIPALVNNKLRSLEKRFSTRLKIDDD  526 (638)
T ss_pred             CCceEEeeEEEEEeccCCHHHHHhcCCChHHHhh--hhc-eeEEeCCChhhhhhHHHHHHHHHHHHHHHHhCCCCCcCHH
Confidence                  1477888888642       12222222  333 3445556665553    3344333222    1  1 1333


Q ss_pred             cHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          484 DLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       484 ~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      .+..|.....--+-++++++++.+...+     ....|+..|+...+
T Consensus       527 a~~~L~~y~WPGNvreL~~~l~~~~~~~-----~~~~i~~~~lp~~~  568 (638)
T PRK11388        527 ALARLVSYRWPGNDFELRSVIENLALSS-----DNGRIRLSDLPEHL  568 (638)
T ss_pred             HHHHHHcCCCCChHHHHHHHHHHHHHhC-----CCCeecHHHCchhh
Confidence            4556666554336788888888766543     12346666665444

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.70  E-value=1.2e-07  Score=107.54  Aligned_cols=193  Identities=23%  Similarity=0.275  Sum_probs=116.3

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM  363 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~  363 (611)
                      ..|++++|.....+.+.+.+....           ....++||+|++|||||++|+++....   +.+|+.+++..+...
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~a-----------~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~~  441 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMVA-----------QSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAG  441 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHHh-----------CCCCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCChh
Confidence            357789998888887777666311           223579999999999999999998865   578999998765321


Q ss_pred             -----c--------ccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-----
Q 007255          364 -----Y--------VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-----  425 (611)
Q Consensus       364 -----~--------~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----  425 (611)
                           .        .|...... ..+.   .....+||||||+.+              ...+...|+..++...     
T Consensus       442 ~~~~~lfg~~~~~~~g~~~~~~-g~le---~a~~GtL~Ldei~~L--------------~~~~Q~~L~~~l~~~~~~~~g  503 (686)
T PRK15429        442 LLESDLFGHERGAFTGASAQRI-GRFE---LADKSSLFLDEVGDM--------------PLELQPKLLRVLQEQEFERLG  503 (686)
T ss_pred             HhhhhhcCcccccccccccchh-hHHH---hcCCCeEEEechhhC--------------CHHHHHHHHHHHHhCCEEeCC
Confidence                 1        11111111 1222   234569999999987              2456677777775321     


Q ss_pred             ----CCCCeEEEEecCCCc--c-----cchhccCCCCccceeecCCCCHHHHHH----HHHHHhcC----CCC----CCc
Q 007255          426 ----QAKGILVLAATNRPH--A-----IDAALMRPGRFDLVLYVPPPDLEARHE----ILRVHTRN----MKV----GDD  482 (611)
Q Consensus       426 ----~~~~~~vI~~tn~~~--~-----ld~al~r~gRf~~~i~~~~p~~~~r~~----il~~~~~~----~~~----~~~  482 (611)
                          ...++.+|++|+.+-  .     +...+..  |+. .+.+..|...+|..    +++.++.+    +..    .++
T Consensus       504 ~~~~~~~~~RiI~~t~~~l~~~~~~~~f~~~L~~--~l~-~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~~s~  580 (686)
T PRK15429        504 SNKIIQTDVRLIAATNRDLKKMVADREFRSDLYY--RLN-VFPIHLPPLRERPEDIPLLVKAFTFKIARRMGRNIDSIPA  580 (686)
T ss_pred             CCCcccceEEEEEeCCCCHHHHHHcCcccHHHHh--ccC-eeEEeCCChhhhHhHHHHHHHHHHHHHHHHcCCCCCCcCH
Confidence                123578888887642  1     2222322  443 34445566655543    44433322    221    123


Q ss_pred             ccHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 007255          483 VDLRSIAEETELFTGAELEGLCREAGIVA  511 (611)
Q Consensus       483 ~~~~~la~~~~g~s~~~i~~~~~~a~~~a  511 (611)
                      ..+..|.....=-+-++++++++.+...+
T Consensus       581 ~al~~L~~y~WPGNvrEL~~~i~~a~~~~  609 (686)
T PRK15429        581 ETLRTLSNMEWPGNVRELENVIERAVLLT  609 (686)
T ss_pred             HHHHHHHhCCCCCcHHHHHHHHHHHHHhC
Confidence            34556655554336789999998887654

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.70  E-value=1.8e-07  Score=94.90  Aligned_cols=61  Identities=16%  Similarity=0.304  Sum_probs=48.1

Q ss_pred             cc-cccchhHHHHHHHHHhhccCCChhHHhhcCC-CCCCCcceeCCCCCChHHHHHHHHHHhCC-------cEEeecc
Q 007255          289 WE-DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGI-SPVRGALLHGPPGCSKTTLAKAAAHAAEA-------SFFSLSG  357 (611)
Q Consensus       289 ~~-~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~-~~~~~~Ll~Gp~G~GKT~la~ala~~~~~-------~~~~~~~  357 (611)
                      |+ ++.|+++++.++.+++.....        |. ...+.++|+||||||||++|+++|+.++.       +++.+..
T Consensus        49 F~~~~~G~~~~i~~lv~~l~~~a~--------g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       49 FDHDFFGMEEAIERFVNYFKSAAQ--------GLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             cchhccCcHHHHHHHHHHHHHHHh--------cCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            55 899999999988887764221        22 23466899999999999999999999966       7888766

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=98.69  E-value=4.8e-08  Score=101.97  Aligned_cols=207  Identities=20%  Similarity=0.238  Sum_probs=126.0

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELY  361 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~  361 (611)
                      .+.+|++|+|....-..+.+.+..           .-.....+|+.|.+||||..+|+++-+..   +.||+.+||+.+-
T Consensus       240 a~y~f~~Iig~S~~m~~~~~~akr-----------~A~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiP  308 (560)
T COG3829         240 AKYTFDDIIGESPAMLRVLELAKR-----------IAKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIP  308 (560)
T ss_pred             cccchhhhccCCHHHHHHHHHHHh-----------hcCCCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccCC
Confidence            356899999988777766666553           22445679999999999999999999877   7899999996553


Q ss_pred             cc-------------cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC----
Q 007255          362 SM-------------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL----  424 (611)
Q Consensus       362 ~~-------------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~----  424 (611)
                      ..             |.|...+.-...|+.|..   .-||+|||..+              ...++..||..|..-    
T Consensus       309 e~LlESELFGye~GAFTGA~~~GK~GlfE~A~g---GTLFLDEIgem--------------pl~LQaKLLRVLQEkei~r  371 (560)
T COG3829         309 ETLLESELFGYEKGAFTGASKGGKPGLFELANG---GTLFLDEIGEM--------------PLPLQAKLLRVLQEKEIER  371 (560)
T ss_pred             HHHHHHHHhCcCCccccccccCCCCcceeeccC---CeEEehhhccC--------------CHHHHHHHHHHHhhceEEe
Confidence            32             233222212235555433   39999999765              356778888777521    


Q ss_pred             -----CCCCCeEEEEecCCCc--cc-----chhccCCCCccceeecCCCCHHHHHH----HHHHH----hcCCCCC----
Q 007255          425 -----EQAKGILVLAATNRPH--AI-----DAALMRPGRFDLVLYVPPPDLEARHE----ILRVH----TRNMKVG----  480 (611)
Q Consensus       425 -----~~~~~~~vI~~tn~~~--~l-----d~al~r~gRf~~~i~~~~p~~~~r~~----il~~~----~~~~~~~----  480 (611)
                           ..+-.+.+|+|||+.=  .+     -..|.=  |+. ++.+..|...+|.+    +...+    .++++..    
T Consensus       372 vG~t~~~~vDVRIIAATN~nL~~~i~~G~FReDLYY--RLN-V~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~~~~v~~l  448 (560)
T COG3829         372 VGGTKPIPVDVRIIAATNRNLEKMIAEGTFREDLYY--RLN-VIPITIPPLRERKEDIPLLAEYFLDKFSRRYGRNVKGL  448 (560)
T ss_pred             cCCCCceeeEEEEEeccCcCHHHHHhcCcchhhhee--eec-eeeecCCCcccCcchHHHHHHHHHHHHHHHcCCCcccC
Confidence                 1122589999999732  12     112221  444 55555666655542    22222    2333322    


Q ss_pred             CcccHHHHHHhC-CCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHH
Q 007255          481 DDVDLRSIAEET-ELFTGAELEGLCREAGIVALREDISATAVRNRHFQ  527 (611)
Q Consensus       481 ~~~~~~~la~~~-~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~  527 (611)
                      ++..+..|.+.. .| +-+++++++..+....-..    ..|+..|+.
T Consensus       449 s~~a~~~L~~y~WPG-NVRELeNviER~v~~~~~~----~~I~~~~lp  491 (560)
T COG3829         449 SPDALALLLRYDWPG-NVRELENVIERAVNLVESD----GLIDADDLP  491 (560)
T ss_pred             CHHHHHHHHhCCCCc-hHHHHHHHHHHHHhccCCc----ceeehhhcc
Confidence            223344444443 35 6788999888877633322    226666655

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.68  E-value=5.8e-08  Score=103.69  Aligned_cols=153  Identities=22%  Similarity=0.257  Sum_probs=95.2

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC----cEEEEcc-----
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA----HLTVISP-----   86 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~----~~~~v~~-----   86 (611)
                      .++.++.|+..+++.+.-.               .....+++|+||||+|||++++.++..+..    ..+.+..     
T Consensus       188 ~d~~~v~Gq~~~~~al~la---------------a~~G~~llliG~~GsGKTtLak~L~gllpp~~g~e~le~~~i~s~~  252 (506)
T PRK09862        188 HDLSDVIGQEQGKRGLEIT---------------AAGGHNLLLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLV  252 (506)
T ss_pred             cCeEEEECcHHHHhhhhee---------------ccCCcEEEEECCCCCcHHHHHHHHhccCCCCCCcEEEecchhhhhh
Confidence            4778888988777665322               224579999999999999999999876531    1222111     


Q ss_pred             c------cc-----ccccccchHHHHHHHHHH----HHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh
Q 007255           87 H------SV-----HKAHVGESEKALREAFSQ----ASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (611)
Q Consensus        87 ~------~~-----~~~~~~~~~~~l~~~f~~----~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~  151 (611)
                      .      .+     ...+...+...+   +-.    -.........++||+||++.+.+          ..+..|++.|+
T Consensus       253 g~~~~~~~~~~rPfr~ph~~~s~~~l---~GGg~~~~pG~l~~A~gGvLfLDEi~e~~~----------~~~~~L~~~LE  319 (506)
T PRK09862        253 NAESVQKQWRQRPFRSPHHSASLTAM---VGGGAIPGPGEISLAHNGVLFLDELPEFER----------RTLDALREPIE  319 (506)
T ss_pred             ccccccCCcCCCCccCCCccchHHHH---hCCCceehhhHhhhccCCEEecCCchhCCH----------HHHHHHHHHHH
Confidence            0      00     000111111111   100    00001123467999999987643          67888888887


Q ss_pred             cCCC-------CCCCCCcEEEEEeecCcc---------------------cccHHhhccCCcceEEEccCCCHHH
Q 007255          152 SNKP-------SKTSVPHVVVVASTNRVD---------------------AIDPALRRSGRFDAEVEVTVPTAEE  198 (611)
Q Consensus       152 ~~~~-------~~~~~~~v~ii~ttn~~~---------------------~l~~~l~~~~Rf~~~i~~~~p~~~~  198 (611)
                      ....       ....+.++.+|+++|+..                     .++.+++.  ||+..+.++.|+.++
T Consensus       320 ~g~v~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLD--RfdL~v~v~~~~~~~  392 (506)
T PRK09862        320 SGQIHLSRTRAKITYPARFQLVAAMNPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLD--RFDLSLEIPLPPPGI  392 (506)
T ss_pred             cCcEEEecCCcceeccCCEEEEEeecCccceecCCCCCCcCHHHHHHHHhhCCHhHHh--hccEEEEeCCCCHHH
Confidence            6432       122345789999999842                     47778888  999999999998773

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=98.68  E-value=1e-07  Score=103.07  Aligned_cols=193  Identities=17%  Similarity=0.189  Sum_probs=112.2

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHH-----------hCCcEEee
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHA-----------AEASFFSL  355 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~-----------~~~~~~~~  355 (611)
                      .+|++++|.....+.+.+.+...           .....++||+|++||||+++|+++...           .+.+|+.+
T Consensus       216 ~~f~~iiG~S~~m~~~~~~i~~~-----------A~s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~i  284 (538)
T PRK15424        216 YVLGDLLGQSPQMEQVRQTILLY-----------ARSSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAV  284 (538)
T ss_pred             cchhheeeCCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEe
Confidence            46888999988777777766531           123457999999999999999999887           36799999


Q ss_pred             cchhhcccc-----ccchH----H----HHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhc
Q 007255          356 SGAELYSMY-----VGESE----A----LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (611)
Q Consensus       356 ~~~~~~~~~-----~g~~~----~----~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~  422 (611)
                      +++.+....     .|..+    .    .-..+|..+   +...||||||+.+              ...++..|+..|+
T Consensus       285 nCaal~e~lleseLFG~~~gaftga~~~~~~Gl~e~A---~gGTLfLdeI~~L--------------p~~~Q~kLl~~L~  347 (538)
T PRK15424        285 NCGAIAESLLEAELFGYEEGAFTGSRRGGRAGLFEIA---HGGTLFLDEIGEM--------------PLPLQTRLLRVLE  347 (538)
T ss_pred             ecccCChhhHHHHhcCCccccccCccccccCCchhcc---CCCEEEEcChHhC--------------CHHHHHHHHhhhh
Confidence            998764311     01000    0    001123332   3459999999987              2456777887775


Q ss_pred             CCC---------CCCCeEEEEecCCCc--cc-----chhccCCCCccceeecCCCCHHHHH----HHHHHHhcC----CC
Q 007255          423 GLE---------QAKGILVLAATNRPH--AI-----DAALMRPGRFDLVLYVPPPDLEARH----EILRVHTRN----MK  478 (611)
Q Consensus       423 ~~~---------~~~~~~vI~~tn~~~--~l-----d~al~r~gRf~~~i~~~~p~~~~r~----~il~~~~~~----~~  478 (611)
                      .-.         -.-++.+|++||..-  ..     .+.|..  |+. .+.+..|...+|.    .+++.++++    ..
T Consensus       348 e~~~~r~G~~~~~~~dvRiIaat~~~L~~~v~~g~Fr~dL~y--rL~-~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~  424 (538)
T PRK15424        348 EKEVTRVGGHQPVPVDVRVISATHCDLEEDVRQGRFRRDLFY--RLS-ILRLQLPPLRERVADILPLAESFLKQSLAALS  424 (538)
T ss_pred             cCeEEecCCCceeccceEEEEecCCCHHHHHhcccchHHHHH--Hhc-CCeecCCChhhchhHHHHHHHHHHHHHHHHcC
Confidence            321         012457888887642  11     122222  333 3445556555554    344444433    22


Q ss_pred             CCCccc-H-------HHHHHhCCCCCHHHHHHHHHHHHHH
Q 007255          479 VGDDVD-L-------RSIAEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       479 ~~~~~~-~-------~~la~~~~g~s~~~i~~~~~~a~~~  510 (611)
                      ..-..+ +       ..|.....=-+-+++++++..+...
T Consensus       425 ~~~~~~a~~~~~~a~~~L~~y~WPGNvREL~nvier~~i~  464 (538)
T PRK15424        425 APFSAALRQGLQQCETLLLHYDWPGNVRELRNLMERLALF  464 (538)
T ss_pred             CCCCHHHHHhhHHHHHHHHhCCCCchHHHHHHHHHHHHHh
Confidence            211111 1       2233332222668888888887664

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=98.67  E-value=1.5e-07  Score=105.18  Aligned_cols=173  Identities=18%  Similarity=0.148  Sum_probs=100.0

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHH--------hcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC-------cEEE
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQ--------KLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-------HLTV   83 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~--------~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~-------~~~~   83 (611)
                      -.|.|.+.+|+.|.-.+...........        ...++...||||+|+||||||.+++++++....       ++..
T Consensus       450 P~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~  529 (915)
T PTZ00111        450 PSIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSS  529 (915)
T ss_pred             CeEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCcc
Confidence            3577888888777444322110000000        012345569999999999999999999985432       2222


Q ss_pred             EcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCC-------C
Q 007255           84 ISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-------S  156 (611)
Q Consensus        84 v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~-------~  156 (611)
                      +++..........+.     -+..-.........++++|||+|.+.+          ..+..|+..|+...-       .
T Consensus       530 vgLTa~~~~~d~~tG-----~~~le~GaLvlAdgGtL~IDEidkms~----------~~Q~aLlEaMEqqtIsI~KaGi~  594 (915)
T PTZ00111        530 VGLTASIKFNESDNG-----RAMIQPGAVVLANGGVCCIDELDKCHN----------ESRLSLYEVMEQQTVTIAKAGIV  594 (915)
T ss_pred             ccccchhhhcccccC-----cccccCCcEEEcCCCeEEecchhhCCH----------HHHHHHHHHHhCCEEEEecCCcc
Confidence            222211100000000     000000011123467999999998854          567788888876431       1


Q ss_pred             CCCCCcEEEEEeecCcc-------------cccHHhhccCCcceE-EEccCCCHHHHHHHHHHhhc
Q 007255          157 KTSVPHVVVVASTNRVD-------------AIDPALRRSGRFDAE-VEVTVPTAEERFEILKLYTK  208 (611)
Q Consensus       157 ~~~~~~v~ii~ttn~~~-------------~l~~~l~~~~Rf~~~-i~~~~p~~~~r~~Il~~~~~  208 (611)
                      .....++.|||++|+..             .+++++++  ||+.. +.++.|+.+.=..|..+.+.
T Consensus       595 ~tL~ar~rVIAAaNP~~gryd~~~s~~eni~Lp~~LLS--RFDLIf~l~D~~d~~~D~~lA~hI~~  658 (915)
T PTZ00111        595 ATLKAETAILASCNPINSRYNKNKAVIENINISPSLFT--RFDLIYLVLDHIDQDTDQLISLSIAK  658 (915)
T ss_pred             eecCCCeEEEEEcCCcccccCcccCcccccCCChHHhh--hhcEEEEecCCCChHHHHHHHHHHHH
Confidence            12335689999999952             56799999  99855 46677777766666666554

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=98.67  E-value=7.7e-07  Score=90.99  Aligned_cols=188  Identities=22%  Similarity=0.267  Sum_probs=120.0

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC-----CcEEEEcccccccc-
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG-----AHLTVISPHSVHKA-   92 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~-----~~~~~v~~~~~~~~-   92 (611)
                      ..+.|.+.....+.+++..++.         ...+..+.++|-||||||.....+...+.     ...++++|.++... 
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle---------~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~  220 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLE---------LNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEAS  220 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhh---------cccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchH
Confidence            5678999999999999876544         24568999999999999999997766553     24467777653211 


Q ss_pred             --------------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCC
Q 007255           93 --------------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKT  158 (611)
Q Consensus        93 --------------~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  158 (611)
                                    ..+.+.......|......  ...+.|+++||+|.|.....       .++..++.+=      ..
T Consensus       221 aiF~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q--~k~~~llVlDEmD~L~tr~~-------~vLy~lFewp------~l  285 (529)
T KOG2227|consen  221 AIFKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQ--SKFMLLLVLDEMDHLITRSQ-------TVLYTLFEWP------KL  285 (529)
T ss_pred             HHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhc--ccceEEEEechhhHHhhccc-------ceeeeehhcc------cC
Confidence                          0111122223333333322  12477999999999985331       2223332221      11


Q ss_pred             CCCcEEEEEeecCccccc---HHhhc-cCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc--ccHHHHHHhccCCcc
Q 007255          159 SVPHVVVVASTNRVDAID---PALRR-SGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN--VDLEAIATSCNGYVG  230 (611)
Q Consensus       159 ~~~~v~ii~ttn~~~~l~---~~l~~-~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~--~~~~~la~~~~g~~~  230 (611)
                      +..++++|+..|..+.-|   |.|.. .+--...+.|++|+.++..+|++..+........  .-++..|....|.+|
T Consensus       286 p~sr~iLiGiANslDlTdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SG  363 (529)
T KOG2227|consen  286 PNSRIILIGIANSLDLTDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSG  363 (529)
T ss_pred             CcceeeeeeehhhhhHHHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCch
Confidence            233688999999866333   44433 1122367899999999999999999877654433  236667777777766

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.67  E-value=4e-08  Score=100.01  Aligned_cols=69  Identities=19%  Similarity=0.254  Sum_probs=48.7

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccc---hHHHHHHHHHHHHhcCCcEEEEcccccc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGE---SEALLRNTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~a~~~~p~il~iDeid~l  395 (611)
                      .+++|+||+|||||+||.|+|+++   +..++.++..++.......   ........+..  ....++|+|||+...
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~--l~~~DLLIIDDlG~e  258 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDL--LINCDLLIIDDLGTE  258 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHH--hccCCEEEEeccCCC
Confidence            689999999999999999999987   7788888888876643211   00111111222  234569999999765

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=98.65  E-value=1.4e-07  Score=102.22  Aligned_cols=193  Identities=17%  Similarity=0.197  Sum_probs=110.7

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM  363 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~  363 (611)
                      .+|++++|.....+.+.+.+...           .....++||+|++||||+++|+++....   +.+|+.++++.+...
T Consensus       209 ~~f~~iiG~S~~m~~~~~~i~~~-----------A~~~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~e~  277 (526)
T TIGR02329       209 YRLDDLLGASAPMEQVRALVRLY-----------ARSDATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAES  277 (526)
T ss_pred             cchhheeeCCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCChh
Confidence            56889999988777777766531           1233579999999999999999998765   679999999876431


Q ss_pred             c-----cc--------chHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-----
Q 007255          364 Y-----VG--------ESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-----  425 (611)
Q Consensus       364 ~-----~g--------~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----  425 (611)
                      .     .|        .....-..+|..+   +...||||||+.+              ...++..|+..|+.-.     
T Consensus       278 lleseLFG~~~gaftga~~~~~~Gl~e~A---~gGTLfLdeI~~L--------------p~~~Q~~Ll~~L~~~~~~r~g  340 (526)
T TIGR02329       278 LLEAELFGYEEGAFTGARRGGRTGLIEAA---HRGTLFLDEIGEM--------------PLPLQTRLLRVLEEREVVRVG  340 (526)
T ss_pred             HHHHHhcCCcccccccccccccccchhhc---CCceEEecChHhC--------------CHHHHHHHHHHHhcCcEEecC
Confidence            1     11        0000011223322   3459999999987              2456777777775321     


Q ss_pred             ----CCCCeEEEEecCCCc--c-----cchhccCCCCccceeecCCCCHHHH----HHHHHHHhcCC----CCC-CcccH
Q 007255          426 ----QAKGILVLAATNRPH--A-----IDAALMRPGRFDLVLYVPPPDLEAR----HEILRVHTRNM----KVG-DDVDL  485 (611)
Q Consensus       426 ----~~~~~~vI~~tn~~~--~-----ld~al~r~gRf~~~i~~~~p~~~~r----~~il~~~~~~~----~~~-~~~~~  485 (611)
                          ..-++.+|++|+.+-  .     +.+.|..  |+. .+.+..|...+|    -.+++.++..+    .+. ++..+
T Consensus       341 ~~~~~~~dvRiIaat~~~l~~~v~~g~fr~dL~~--rL~-~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~  417 (526)
T TIGR02329       341 GTEPVPVDVRVVAATHCALTTAVQQGRFRRDLFY--RLS-ILRIALPPLRERPGDILPLAAEYLVQAAAALRLPDSEAAA  417 (526)
T ss_pred             CCceeeecceEEeccCCCHHHHhhhcchhHHHHH--hcC-CcEEeCCCchhchhHHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence                011357888887642  1     2223332  443 233444444444    34444444332    111 11112


Q ss_pred             HH-------HHHhCCCCCHHHHHHHHHHHHHH
Q 007255          486 RS-------IAEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       486 ~~-------la~~~~g~s~~~i~~~~~~a~~~  510 (611)
                      ..       |.....=-+-+++++++..+...
T Consensus       418 ~~~~~~~~~L~~y~WPGNvrEL~nvier~~i~  449 (526)
T TIGR02329       418 QVLAGVADPLQRYPWPGNVRELRNLVERLALE  449 (526)
T ss_pred             HHhHHHHHHHHhCCCCchHHHHHHHHHHHHHh
Confidence            22       33333322567888888776654

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>PRK08181 transposase; Validated

Probab=98.64  E-value=4.4e-08  Score=96.78  Aligned_cols=70  Identities=23%  Similarity=0.267  Sum_probs=50.0

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccc-hHHHHHHHHHHHHhcCCcEEEEcccccc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGE-SEALLRNTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~-~~~~~~~~~~~a~~~~p~il~iDeid~l  395 (611)
                      ..+++|+||||||||+||.++|.++   |..++.++..++....... ........++..  ..+++|+|||++.+
T Consensus       106 ~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l--~~~dLLIIDDlg~~  179 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKL--DKFDLLILDDLAYV  179 (269)
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHH--hcCCEEEEeccccc
Confidence            4579999999999999999999765   7778888888877643221 111222333332  35679999999866

>PRK08116 hypothetical protein; Validated

Probab=98.64  E-value=1.8e-07  Score=92.92  Aligned_cols=123  Identities=19%  Similarity=0.271  Sum_probs=71.4

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccccccc----chHHHHHHHHHHHHhhhhcCCCeEEEEccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVG----ESEKALREAFSQASSHALSGKPSVVFIDEI  125 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~----~~~~~l~~~f~~~~~~~~~~~~~il~IDei  125 (611)
                      +.+++|+|++|||||+|+.++++++   +.+++.++..++......    ........+++...      ...+|+|||+
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l~------~~dlLviDDl  187 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKSTYKSSGKEDENEIIRSLV------NADLLILDDL  187 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhccccccHHHHHHHhc------CCCEEEEecc
Confidence            4679999999999999999999986   667777777665432211    00011112222221      2459999999


Q ss_pred             cccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCc-cc----ccHHhhccCCc---ceEEEccCCCH
Q 007255          126 DALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV-DA----IDPALRRSGRF---DAEVEVTVPTA  196 (611)
Q Consensus       126 d~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~-~~----l~~~l~~~~Rf---~~~i~~~~p~~  196 (611)
                      .....        ....+..|+++++......     ..+|.|||.+ ..    +++++.+  |+   ...+.++-++.
T Consensus       188 g~e~~--------t~~~~~~l~~iin~r~~~~-----~~~IiTsN~~~~eL~~~~~~ri~s--Rl~e~~~~v~~~g~d~  251 (268)
T PRK08116        188 GAERD--------TEWAREKVYNIIDSRYRKG-----LPTIVTTNLSLEELKNQYGKRIYD--RILEMCTPVENEGKSY  251 (268)
T ss_pred             cCCCC--------CHHHHHHHHHHHHHHHHCC-----CCEEEECCCCHHHHHHHHhHHHHH--HHHHcCEEEEeeCcCh
Confidence            54211        1133456667776532221     2356666663 33    4566766  64   33566666654

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=98.63  E-value=4.3e-07  Score=90.00  Aligned_cols=125  Identities=15%  Similarity=0.217  Sum_probs=89.1

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc--------cccc---ccccc--chHHHHHHHHHHHHhhhhcCCC
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP--------HSVH---KAHVG--ESEKALREAFSQASSHALSGKP  117 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~--------~~~~---~~~~~--~~~~~l~~~f~~~~~~~~~~~~  117 (611)
                      +.+..+||+||+|+||+.+|.++|+.+.+.-..-+|        .++.   ....+  -....++.+.+.....+..+..
T Consensus        17 rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~~   96 (290)
T PRK05917         17 KVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESPY   96 (290)
T ss_pred             CcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCCc
Confidence            356789999999999999999999988542100001        0110   00000  1344566666666655555666


Q ss_pred             eEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCC
Q 007255          118 SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVP  194 (611)
Q Consensus       118 ~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p  194 (611)
                      -|++||++|.|..          ...+.|++.+++      +++++++|..|+.++.+.|.++|  |+. .+.|+++
T Consensus        97 kv~ii~~ad~mt~----------~AaNaLLK~LEE------Pp~~~~fiL~~~~~~~ll~TI~S--Rcq-~~~~~~~  154 (290)
T PRK05917         97 KIYIIHEADRMTL----------DAISAFLKVLED------PPQHGVIILTSAKPQRLPPTIRS--RSL-SIHIPME  154 (290)
T ss_pred             eEEEEechhhcCH----------HHHHHHHHHhhc------CCCCeEEEEEeCChhhCcHHHHh--cce-EEEccch
Confidence            7999999999854          678999999997      45578889999999999999999  884 7788765

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.63  E-value=3e-07  Score=100.38  Aligned_cols=196  Identities=16%  Similarity=0.147  Sum_probs=111.7

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELY  361 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~  361 (611)
                      ...+|++++|....-+.+.+.+...       .    .....+||+|++||||+++|+++....   +.+|+.++++.+.
T Consensus       199 ~~~~f~~~ig~s~~~~~~~~~~~~~-------A----~~~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~  267 (520)
T PRK10820        199 DDSAFSQIVAVSPKMRQVVEQARKL-------A----MLDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIP  267 (520)
T ss_pred             ccccccceeECCHHHHHHHHHHHHH-------h----CCCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCC
Confidence            3457889999887666665554421       0    123459999999999999999987665   4789999998764


Q ss_pred             ccc-----ccchH-------HHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC--CC-
Q 007255          362 SMY-----VGESE-------ALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL--EQ-  426 (611)
Q Consensus       362 ~~~-----~g~~~-------~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~--~~-  426 (611)
                      ...     .|...       ..-..+|..   .....||||||+.+.              ..+...|+..+..-  .+ 
T Consensus       268 ~~~~e~elFG~~~~~~~~~~~~~~g~~e~---a~~GtL~LdeI~~L~--------------~~~Q~~Ll~~l~~~~~~~~  330 (520)
T PRK10820        268 DDVVESELFGHAPGAYPNALEGKKGFFEQ---ANGGSVLLDEIGEMS--------------PRMQAKLLRFLNDGTFRRV  330 (520)
T ss_pred             HHHHHHHhcCCCCCCcCCcccCCCChhhh---cCCCEEEEeChhhCC--------------HHHHHHHHHHHhcCCcccC
Confidence            310     01000       000112332   234599999999872              45667777777531  11 


Q ss_pred             ------CCCeEEEEecCCCc-c------cchhccCCCCccceeecCCCCHHHHH----HHHHHHh----cCCCC----CC
Q 007255          427 ------AKGILVLAATNRPH-A------IDAALMRPGRFDLVLYVPPPDLEARH----EILRVHT----RNMKV----GD  481 (611)
Q Consensus       427 ------~~~~~vI~~tn~~~-~------ld~al~r~gRf~~~i~~~~p~~~~r~----~il~~~~----~~~~~----~~  481 (611)
                            ..++.||+||+.+- .      +.+.|..  |+. .+.+..|...+|.    .+++.++    .+...    .+
T Consensus       331 g~~~~~~~~vRiI~st~~~l~~l~~~g~f~~dL~~--rL~-~~~i~lPpLreR~~Di~~L~~~fl~~~~~~~g~~~~~ls  407 (520)
T PRK10820        331 GEDHEVHVDVRVICATQKNLVELVQKGEFREDLYY--RLN-VLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLA  407 (520)
T ss_pred             CCCcceeeeeEEEEecCCCHHHHHHcCCccHHHHh--hcC-eeEEeCCCcccChhHHHHHHHHHHHHHHHHcCCCCCCcC
Confidence                  12467888877642 1      3344444  554 3444455555544    3333332    22221    12


Q ss_pred             cccHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 007255          482 DVDLRSIAEETELFTGAELEGLCREAGIVA  511 (611)
Q Consensus       482 ~~~~~~la~~~~g~s~~~i~~~~~~a~~~a  511 (611)
                      +..+..|.....--+-+++++++..|...+
T Consensus       408 ~~a~~~L~~y~WPGNvreL~nvl~~a~~~~  437 (520)
T PRK10820        408 ADLNTVLTRYGWPGNVRQLKNAIYRALTQL  437 (520)
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHHHhC
Confidence            223455555433226678888887776643

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=98.63  E-value=1.8e-06  Score=82.91  Aligned_cols=106  Identities=25%  Similarity=0.313  Sum_probs=65.7

Q ss_pred             CCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC-------------cccccHHhhcc
Q 007255          116 KPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR-------------VDAIDPALRRS  182 (611)
Q Consensus       116 ~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~-------------~~~l~~~l~~~  182 (611)
                      -|+||||||+|.|          +.+....|...++..      ..++++++ +|+             |..+++.+.. 
T Consensus       296 vPGVLFIDEVhML----------DiEcFTyL~kalES~------iaPivifA-sNrG~~~irGt~d~~sPhGip~dllD-  357 (456)
T KOG1942|consen  296 VPGVLFIDEVHML----------DIECFTYLHKALESP------IAPIVIFA-SNRGMCTIRGTEDILSPHGIPPDLLD-  357 (456)
T ss_pred             cCcceEeeehhhh----------hhHHHHHHHHHhcCC------CCceEEEe-cCCcceeecCCcCCCCCCCCCHHHhh-
Confidence            3789999999876          224455555666542      22344444 443             4577889988 


Q ss_pred             CCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcc-cHHHHHHhccCCccccHHHHHHHHH
Q 007255          183 GRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       183 ~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~-~~~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                       |.. .|..-+++.++..+|++...+...+.-+. .+..++......+-+-..+++.-+.
T Consensus       358 -Rl~-Iirt~~y~~~e~r~Ii~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~p~~  415 (456)
T KOG1942|consen  358 -RLL-IIRTLPYDEEEIRQIIKIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPAS  415 (456)
T ss_pred             -hee-EEeeccCCHHHHHHHHHHHHhhhcceecHHHHHHHHhhccchhHHHHHHhcCHHH
Confidence             874 77888889999999999888766554332 3555555444434444444444333

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.62  E-value=7.5e-07  Score=96.01  Aligned_cols=207  Identities=15%  Similarity=0.203  Sum_probs=116.7

Q ss_pred             cccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee-cchh
Q 007255          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL-SGAE  359 (611)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~-~~~~  359 (611)
                      .....+.+.+|+.-...-.+.++.++...+.        +..+.+-+||+||||||||++++.+|++++..+.+- ++..
T Consensus        10 ~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~--------~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew~np~~   81 (519)
T PF03215_consen   10 VEKYAPKTLDELAVHKKKVEEVRSWLEEMFS--------GSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEWINPVS   81 (519)
T ss_pred             chhcCCCCHHHhhccHHHHHHHHHHHHHHhc--------cCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEecCCCC
Confidence            3344556777777766656666666653211        223345678999999999999999999999887753 3333


Q ss_pred             hcc------ccccch---H---H---HHHHH-HHHHHh-----------cCCcEEEEcccccccccCCCCCCCCcchhHH
Q 007255          360 LYS------MYVGES---E---A---LLRNT-FQRARL-----------AAPSIIFFDEADVVGAKRGGSSSTSITVGER  412 (611)
Q Consensus       360 ~~~------~~~g~~---~---~---~~~~~-~~~a~~-----------~~p~il~iDeid~l~~~~~~~~~~~~~~~~~  412 (611)
                      +..      .|.+..   .   .   ....+ +...+.           ..+.||+|||+-.++..         + ..+
T Consensus        82 ~~~~~~~~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~~---------~-~~~  151 (519)
T PF03215_consen   82 FRESDNQEDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFHR---------D-TSR  151 (519)
T ss_pred             ccccccccccccccccccccccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccch---------h-HHH
Confidence            111      111110   0   0   11111 111111           23569999999866532         1 144


Q ss_pred             HHHHHHHHhcCCCCCC-CeEEEEec-C------CCc--------ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcC
Q 007255          413 LLSTLLTEMDGLEQAK-GILVLAAT-N------RPH--------AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRN  476 (611)
Q Consensus       413 ~~~~ll~~l~~~~~~~-~~~vI~~t-n------~~~--------~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~  476 (611)
                      +...|...+..  ... .++||.+- .      ...        .+++.++.-.++. +|.|.+-.....++-|+..+..
T Consensus       152 f~~~L~~~l~~--~~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i~-~I~FNpIa~T~mkKaL~rI~~~  228 (519)
T PF03215_consen  152 FREALRQYLRS--SRCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGIT-RIKFNPIAPTFMKKALKRILKK  228 (519)
T ss_pred             HHHHHHHHHHc--CCCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCce-EEEecCCCHHHHHHHHHHHHHH
Confidence            55555555542  222 55666551 1      111        3455555433444 7888887777776666644432


Q ss_pred             C--------CCCCccc-HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 007255          477 M--------KVGDDVD-LRSIAEETELFTGAELEGLCREAGIVAL  512 (611)
Q Consensus       477 ~--------~~~~~~~-~~~la~~~~g~s~~~i~~~~~~a~~~a~  512 (611)
                      .        ....... ++.+++.+.    +||+.++......+.
T Consensus       229 E~~~~~~~~~~p~~~~~l~~I~~~s~----GDIRsAIn~LQf~~~  269 (519)
T PF03215_consen  229 EARSSSGKNKVPDKQSVLDSIAESSN----GDIRSAINNLQFWCL  269 (519)
T ss_pred             HhhhhcCCccCCChHHHHHHHHHhcC----chHHHHHHHHHHHhc
Confidence            2        1112223 677777655    499999987777776

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.62  E-value=2.5e-08  Score=102.69  Aligned_cols=48  Identities=33%  Similarity=0.362  Sum_probs=40.2

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      ..+|.||.|++.+|..+.-+..               -..|+|++||||||||++++.+...+
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAAA---------------GgHnLl~~GpPGtGKTmla~Rl~~lL  222 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAAA---------------GGHNLLLVGPPGTGKTMLASRLPGLL  222 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHHh---------------cCCcEEEecCCCCchHHhhhhhcccC
Confidence            4589999999999999977542               24799999999999999999876544

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.62  E-value=1.2e-07  Score=93.40  Aligned_cols=71  Identities=21%  Similarity=0.305  Sum_probs=49.9

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchHH-HHH-HHHHHHHhcCCcEEEEcccccc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEA-LLR-NTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~~-~~~-~~~~~a~~~~p~il~iDeid~l  395 (611)
                      .+.+++|+||||+|||+||-|+|+++   |..+..+..+++.......... ... .+.+..  ...++|+|||+...
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~l--~~~dlLIiDDlG~~  179 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLREL--KKVDLLIIDDIGYE  179 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHHh--hcCCEEEEecccCc
Confidence            45789999999999999999999998   7888899988887753222111 111 111111  34459999999654

>PRK06526 transposase; Provisional

Probab=98.61  E-value=4.5e-08  Score=96.26  Aligned_cols=70  Identities=20%  Similarity=0.306  Sum_probs=47.1

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccc-hHHHHHHHHHHHHhcCCcEEEEcccccc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGE-SEALLRNTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~-~~~~~~~~~~~a~~~~p~il~iDeid~l  395 (611)
                      +.+++|+||||||||++|.+++.++   |..+...+..++....... ....+...++.  ...+++|+|||++.+
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~--l~~~dlLIIDD~g~~  171 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAGRLQAELVK--LGRYPLLIVDEVGYI  171 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHH--hccCCEEEEcccccC
Confidence            4679999999999999999999876   6667667776665533111 01112222222  235679999999876

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=98.61  E-value=4.1e-07  Score=100.08  Aligned_cols=54  Identities=26%  Similarity=0.407  Sum_probs=45.9

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA  350 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~  350 (611)
                      ...|+..|+++.|++++++.|...+..               .++++|+||||||||++|++++..+.+
T Consensus        23 ~~~~~~~~~~vigq~~a~~~L~~~~~~---------------~~~~l~~G~~G~GKttla~~l~~~l~~   76 (637)
T PRK13765         23 IEVPERLIDQVIGQEHAVEVIKKAAKQ---------------RRHVMMIGSPGTGKSMLAKAMAELLPK   76 (637)
T ss_pred             cccCcccHHHcCChHHHHHHHHHHHHh---------------CCeEEEECCCCCcHHHHHHHHHHHcCh
Confidence            556778999999999999998887663               137999999999999999999988753

>KOG3595 consensus Dyneins, heavy chain [Cytoskeleton]

Probab=98.60  E-value=2.6e-06  Score=102.83  Aligned_cols=328  Identities=20%  Similarity=0.238  Sum_probs=174.5

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCC-cEEEEcccccccccccchHH-HHHHHHHHHH---hhhhcCCCeEEEEcccccc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGA-HLTVISPHSVHKAHVGESEK-ALREAFSQAS---SHALSGKPSVVFIDEIDAL  128 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~-~~~~v~~~~~~~~~~~~~~~-~l~~~f~~~~---~~~~~~~~~il~IDeid~l  128 (611)
                      +.++++||+|+|||.++......... .++.++.+...+   +...+ .+..-.+...   ..+..++..++|+||++.-
T Consensus       128 k~~~~~g~~g~gk~~~~~~~~~~~~~~~~~~~~fs~~ts---~~~~q~~~~~~~~k~~~~~~~~~~~~~~~~f~ddinmp  204 (1395)
T KOG3595|consen  128 KPVLLVGPTGTGKTVLVLSELRSLQDREVYLLNFSSVTS---SELLQEIIESKLDKRRSGNYGPPLGKKLVLFVDDINMP  204 (1395)
T ss_pred             CeEEEEcCCCCCeeeehHHHHHhcccchheEEeeeeecc---HHHHHHHHHHHHHHhcccCCCCCCCceeEEEEeccCCc
Confidence            79999999999999999987766543 222222221111   11111 1111111111   1111223459999999743


Q ss_pred             CCCCCCCchhhHHHHHHHHHHH---hcCCCCCCCCCcEEEEEeecCcc----cccHHhhccCCcceEEEccCCCHHHHHH
Q 007255          129 CPRRDHRREQDVRIASQLFTLM---DSNKPSKTSVPHVVVVASTNRVD----AIDPALRRSGRFDAEVEVTVPTAEERFE  201 (611)
Q Consensus       129 ~~~~~~~~~~~~~~~~~ll~~l---~~~~~~~~~~~~v~ii~ttn~~~----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~  201 (611)
                      .. ...+......+..+++..-   +..........++.++++++++.    .+++++.|  +|. .+.++.|+.+...+
T Consensus       205 ~~-~~yg~q~~~~~lrq~~e~~g~~~~~~~~~~~i~~i~~~~a~~~~~~gr~~i~~r~~r--~f~-~~~~~~~~~~sl~~  280 (1395)
T KOG3595|consen  205 AL-DKYGDQPPIELLRQMLEHGGFYDRKKSEWVEIENVQLVGAMNPPGGGRNDITERFLR--HFL-IVSLNYPSQESLTQ  280 (1395)
T ss_pred             hh-hhcCCccHHHHHHHHHHhceeecccccceeEEeeeEEEeecCCCCCccCcccHHHHH--Hee-eEeeCCCChhhHHH
Confidence            22 2333444444555544332   22223344456789999999754    67788887  664 78999999999999


Q ss_pred             HHHHhhcCCCCCCc----------------------------------ccHHHHHHhccCCc------cccHHHHHHHHH
Q 007255          202 ILKLYTKKVPLDAN----------------------------------VDLEAIATSCNGYV------GADLEALCREAT  241 (611)
Q Consensus       202 Il~~~~~~~~~~~~----------------------------------~~~~~la~~~~g~~------~~dl~~l~~~a~  241 (611)
                      |+..++........                                  .+++.+.....|..      -.++..+.+-+.
T Consensus       281 if~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~t~~~~hyv~~lrd~~r~~~~i~~~~~~~~~~~~~l~~~~~  360 (1395)
T KOG3595|consen  281 IFNTILTGHLRFAPAFRTSIEPIVNASVDFYPKVQENFLPTPSKSHYVFNLRDLSRVVQGILLAVSEALLTLEDLIRLWV  360 (1395)
T ss_pred             HHHHHHhcccCccHHHHHhHHHHHHHHHHHHHHHHHhcCCCCCcceeeechhhhhhheeehcccCcHhhccHHHHHHHHH
Confidence            99988765532110                                  01222222222221      123455666666


Q ss_pred             HHHhhhcccccccccccchhHHHHHHHHhccC-------CcccccccccCCCcccccccchhHHHHHHHHHhhc------
Q 007255          242 MSAVKRSSDANECAGVLSVTMEDWRHARSVVG-------PSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW------  308 (611)
Q Consensus       242 ~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~-------~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~------  308 (611)
                      ..+.+-+.+.-..........+.+........       |.....+..... ..|.++...+.+...+...+..      
T Consensus       361 ~e~~rv~~drlv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~y~~~~~~~~l~~~~~~~l~~~~~~~~  439 (1395)
T KOG3595|consen  361 HEAIRVFADRLVDDEDRQWFDKKLQEVLLKLFEADSLQMPLLYGDFRSESH-KIYEEVLSVELLRGVLEAYLKQFNIEEI  439 (1395)
T ss_pred             HHHHHhhhhhcccHHHHHHHHHHHHHHHHHHhhhhhhcCCceeeecccccc-cccCchHhHHHHHHHHHHHHHHHhhhcc
Confidence            66666555433222222222222222222111       111111110000 3355555555555444333221      


Q ss_pred             ----------cCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHH
Q 007255          309 ----------PIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQR  378 (611)
Q Consensus       309 ----------~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~  378 (611)
                                ...|.....+.-..+..+.++.|-.|+||+++.+..+...+..++.+.....+.  ..+....++.+...
T Consensus       440 ~~~~lvlf~~~~~h~~ri~ril~~~~g~~llvgv~g~gkqsl~r~~~~~~~~~~fq~~~~~~y~--~~~~~~dl~~~~r~  517 (1395)
T KOG3595|consen  440 RPMHLVLFRDAIEHVLRIDRILRQPRGHALLVGVGGSGKQSLTRLAAFINGLSVFQIEITRSYN--IEDFREDLKAILRK  517 (1395)
T ss_pred             CCCceeeeHHHhhhhhhhHHHhcCCCccEEEeecCCCCcccHHHHHHhhccccceeeeccccCc--HHHHHHHHHHHHHH
Confidence                      112233334444567788999999999999999999999998888776554332  22334556666666


Q ss_pred             HHhcCCc-EEEEcc
Q 007255          379 ARLAAPS-IIFFDE  391 (611)
Q Consensus       379 a~~~~p~-il~iDe  391 (611)
                      +...+.. ++.++|
T Consensus       518 ~g~~~~~~~f~~~~  531 (1395)
T KOG3595|consen  518 AGLKNKETVFILTD  531 (1395)
T ss_pred             hccCCCceEEeech
Confidence            5544433 444444

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=98.60  E-value=1.9e-07  Score=96.25  Aligned_cols=194  Identities=22%  Similarity=0.243  Sum_probs=117.4

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcc
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS  362 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~  362 (611)
                      .....+|+|......++.+.+...           .+....+||.|.+||||..+|++|-+..   +.+|+.+|++.+-.
T Consensus       219 ~~~~~~iIG~S~am~~ll~~i~~V-----------A~Sd~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPe  287 (550)
T COG3604         219 VLEVGGIIGRSPAMRQLLKEIEVV-----------AKSDSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPE  287 (550)
T ss_pred             hcccccceecCHHHHHHHHHHHHH-----------hcCCCeEEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccch
Confidence            456778999988888887776631           1334579999999999999999999887   68999999965533


Q ss_pred             ---------ccccchHHHHH---HHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC-----C
Q 007255          363 ---------MYVGESEALLR---NTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL-----E  425 (611)
Q Consensus       363 ---------~~~g~~~~~~~---~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~-----~  425 (611)
                               ...|.+.+.+.   .-|+.|   ...-||+|||..+              .-.++..||..|..-     .
T Consensus       288 sLlESELFGHeKGAFTGA~~~r~GrFElA---dGGTLFLDEIGel--------------PL~lQaKLLRvLQegEieRvG  350 (550)
T COG3604         288 SLLESELFGHEKGAFTGAINTRRGRFELA---DGGTLFLDEIGEL--------------PLALQAKLLRVLQEGEIERVG  350 (550)
T ss_pred             HHHHHHHhcccccccccchhccCcceeec---CCCeEechhhccC--------------CHHHHHHHHHHHhhcceeecC
Confidence                     22232222111   123222   2449999999766              245667777766421     1


Q ss_pred             CCC----CeEEEEecCCCcccchhccCCCCcc-------ceeecCCCCHHHHH----HHHHHHh----cCCCC-C---Cc
Q 007255          426 QAK----GILVLAATNRPHAIDAALMRPGRFD-------LVLYVPPPDLEARH----EILRVHT----RNMKV-G---DD  482 (611)
Q Consensus       426 ~~~----~~~vI~~tn~~~~ld~al~r~gRf~-------~~i~~~~p~~~~r~----~il~~~~----~~~~~-~---~~  482 (611)
                      ...    .|.||++||+-  +..++.. |+|-       .++.+..|-..+|.    -+.+.++    +.... .   +.
T Consensus       351 ~~r~ikVDVRiIAATNRD--L~~~V~~-G~FRaDLYyRLsV~Pl~lPPLRER~~DIplLA~~Fle~~~~~~gr~~l~ls~  427 (550)
T COG3604         351 GDRTIKVDVRVIAATNRD--LEEMVRD-GEFRADLYYRLSVFPLELPPLRERPEDIPLLAGYFLEKFRRRLGRAILSLSA  427 (550)
T ss_pred             CCceeEEEEEEEeccchh--HHHHHHc-CcchhhhhhcccccccCCCCcccCCccHHHHHHHHHHHHHHhcCCcccccCH
Confidence            111    48899999972  2222221 3332       14444455555543    2222222    22333 1   22


Q ss_pred             ccHHHHHHhCC-CCCHHHHHHHHHHHHHHH
Q 007255          483 VDLRSIAEETE-LFTGAELEGLCREAGIVA  511 (611)
Q Consensus       483 ~~~~~la~~~~-g~s~~~i~~~~~~a~~~a  511 (611)
                      ..++.|..... | +-+++++++..|...|
T Consensus       428 ~Al~~L~~y~wPG-NVRELen~veRavlla  456 (550)
T COG3604         428 EALELLSSYEWPG-NVRELENVVERAVLLA  456 (550)
T ss_pred             HHHHHHHcCCCCC-cHHHHHHHHHHHHHHh
Confidence            33444444432 4 5689999999999977

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=98.60  E-value=2.1e-07  Score=90.83  Aligned_cols=182  Identities=21%  Similarity=0.275  Sum_probs=98.9

Q ss_pred             chhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC---cEEeecc---------hhh-
Q 007255          294 GLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA---SFFSLSG---------AEL-  360 (611)
Q Consensus       294 g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~---~~~~~~~---------~~~-  360 (611)
                      |.+.-.+.|.+.+..             .+...++++||.|+|||++++.+.+....   ..+.+..         ..+ 
T Consensus         3 gR~~el~~l~~~l~~-------------~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~   69 (234)
T PF01637_consen    3 GREKELEKLKELLES-------------GPSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRSFI   69 (234)
T ss_dssp             S-HHHHHHHHHCHHH---------------SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh-------------hcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHHHH
Confidence            445555566655542             23467999999999999999999998832   1111111         000 


Q ss_pred             ------------cc-c------------cccchHHHHHHHHHHHHhcC-CcEEEEccccccc-ccCCCCCCCCcchhHHH
Q 007255          361 ------------YS-M------------YVGESEALLRNTFQRARLAA-PSIIFFDEADVVG-AKRGGSSSTSITVGERL  413 (611)
Q Consensus       361 ------------~~-~------------~~g~~~~~~~~~~~~a~~~~-p~il~iDeid~l~-~~~~~~~~~~~~~~~~~  413 (611)
                                  .. .            ........+..+++...... ..||+|||++.+. +..         ....+
T Consensus        70 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~---------~~~~~  140 (234)
T PF01637_consen   70 EETSLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASE---------EDKDF  140 (234)
T ss_dssp             HHHHHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTT---------TTHHH
T ss_pred             HHHHHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhccc---------chHHH
Confidence                        00 0            00122345666666665533 4799999999996 211         12456


Q ss_pred             HHHHHHHhcCCCCCCCeEEEEecCCCccc------chhccCCCCccceeecCCCCHHHHHHHHHHHhcCCC-C-CCcccH
Q 007255          414 LSTLLTEMDGLEQAKGILVLAATNRPHAI------DAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMK-V-GDDVDL  485 (611)
Q Consensus       414 ~~~ll~~l~~~~~~~~~~vI~~tn~~~~l------d~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~-~-~~~~~~  485 (611)
                      ...|...++......++.+|.++......      ...+.  +|+.. +.+++.+.++..++++..++... + .++.++
T Consensus       141 ~~~l~~~~~~~~~~~~~~~v~~~S~~~~~~~~~~~~~~~~--~~~~~-~~l~~l~~~e~~~~~~~~~~~~~~~~~~~~~~  217 (234)
T PF01637_consen  141 LKSLRSLLDSLLSQQNVSIVITGSSDSLMEEFLDDKSPLF--GRFSH-IELKPLSKEEAREFLKELFKELIKLPFSDEDI  217 (234)
T ss_dssp             HHHHHHHHHH----TTEEEEEEESSHHHHHHTT-TTSTTT--T---E-EEE----HHHHHHHHHHHHHCC------HHHH
T ss_pred             HHHHHHHHhhccccCCceEEEECCchHHHHHhhcccCccc--cccce-EEEeeCCHHHHHHHHHHHHHHhhcccCCHHHH
Confidence            67777777654445555555555443222      12233  37876 99999999999999998766551 1 256678


Q ss_pred             HHHHHhCCCCCHHHHH
Q 007255          486 RSIAEETELFTGAELE  501 (611)
Q Consensus       486 ~~la~~~~g~s~~~i~  501 (611)
                      +.+...+.|+ |+.|.
T Consensus       218 ~~i~~~~gG~-P~~l~  232 (234)
T PF01637_consen  218 EEIYSLTGGN-PRYLQ  232 (234)
T ss_dssp             HHHHHHHTT--HHHHH
T ss_pred             HHHHHHhCCC-HHHHh
Confidence            8888888884 55443

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=98.59  E-value=2.9e-06  Score=81.75  Aligned_cols=129  Identities=22%  Similarity=0.295  Sum_probs=81.2

Q ss_pred             CCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC------------cccccHHhhccC
Q 007255          116 KPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR------------VDAIDPALRRSG  183 (611)
Q Consensus       116 ~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~------------~~~l~~~l~~~~  183 (611)
                      -|+||||||+|.|-          .+-.+.|...++..      ..++++++ ||+            |..++-.+..  
T Consensus       288 vpGVLFIDEvHMLD----------IEcFsFlNrAlE~d------~~Piiima-TNrgit~iRGTn~~SphGiP~D~lD--  348 (454)
T KOG2680|consen  288 VPGVLFIDEVHMLD----------IECFSFLNRALEND------MAPIIIMA-TNRGITRIRGTNYRSPHGIPIDLLD--  348 (454)
T ss_pred             ccceEEEeeehhhh----------hHHHHHHHHHhhhc------cCcEEEEE-cCCceEEeecCCCCCCCCCcHHHhh--
Confidence            37799999988662          23344555555542      12345544 443            4577888887  


Q ss_pred             CcceEEEccCCCHHHHHHHHHHhhcCCCCCCccc-HHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhH
Q 007255          184 RFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTM  262 (611)
Q Consensus       184 Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~-~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~  262 (611)
                      |.. .|...+++.++..+|++..+.......+.+ ++.+......-+-+---+|+..+...+.+|...        .+..
T Consensus       349 R~l-II~t~py~~~d~~~IL~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~--------~v~~  419 (454)
T KOG2680|consen  349 RML-IISTQPYTEEDIKKILRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGK--------VVEV  419 (454)
T ss_pred             hhh-eeecccCcHHHHHHHHHhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCc--------eeeh
Confidence            764 788999999999999999997765443322 444444444444555567777777777776543        3445


Q ss_pred             HHHHHHHhcc
Q 007255          263 EDWRHARSVV  272 (611)
Q Consensus       263 ed~~~a~~~i  272 (611)
                      +|+..+...+
T Consensus       420 ~di~r~y~LF  429 (454)
T KOG2680|consen  420 DDIERVYRLF  429 (454)
T ss_pred             hHHHHHHHHH
Confidence            5555554433

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.58  E-value=1.6e-07  Score=83.77  Aligned_cols=126  Identities=30%  Similarity=0.467  Sum_probs=76.6

Q ss_pred             CCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC---cEEEEcccccccccccchH
Q 007255           22 GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA---HLTVISPHSVHKAHVGESE   98 (611)
Q Consensus        22 ~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~---~~~~v~~~~~~~~~~~~~~   98 (611)
                      +|.....+.+.+.+....           ....+|+|+|++||||+++|+++....+.   +++.+++....        
T Consensus         1 vG~S~~~~~l~~~l~~~a-----------~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~--------   61 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLA-----------KSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP--------   61 (138)
T ss_dssp             --SCHHHHHHHHHHHHHH-----------CSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC--------
T ss_pred             CCCCHHHHHHHHHHHHHh-----------CCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc--------
Confidence            355566666666654421           24579999999999999999999887653   34444444332        


Q ss_pred             HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC-cc----
Q 007255           99 KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR-VD----  173 (611)
Q Consensus        99 ~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~-~~----  173 (611)
                         .+.++.+       +++.|||+|+|.|.+          ..+..|+..+......     ++.+|+++.. ..    
T Consensus        62 ---~~~l~~a-------~~gtL~l~~i~~L~~----------~~Q~~L~~~l~~~~~~-----~~RlI~ss~~~l~~l~~  116 (138)
T PF14532_consen   62 ---AELLEQA-------KGGTLYLKNIDRLSP----------EAQRRLLDLLKRQERS-----NVRLIASSSQDLEELVE  116 (138)
T ss_dssp             ---HHHHHHC-------TTSEEEEECGCCS-H----------HHHHHHHHHHHHCTTT-----TSEEEEEECC-CCCHHH
T ss_pred             ---HHHHHHc-------CCCEEEECChHHCCH----------HHHHHHHHHHHhcCCC-----CeEEEEEeCCCHHHHhh
Confidence               2334443       377999999998855          6678888888764311     3455555544 22    


Q ss_pred             --cccHHhhccCCcc-eEEEccC
Q 007255          174 --AIDPALRRSGRFD-AEVEVTV  193 (611)
Q Consensus       174 --~l~~~l~~~~Rf~-~~i~~~~  193 (611)
                        .+++.|..  |+. ..|.+|+
T Consensus       117 ~~~~~~~L~~--~l~~~~i~lPp  137 (138)
T PF14532_consen  117 EGRFSPDLYY--RLSQLEIHLPP  137 (138)
T ss_dssp             HSTHHHHHHH--HCSTCEEEE--
T ss_pred             ccchhHHHHH--HhCCCEEeCCC
Confidence              45666665  554 3455554

>PRK08181 transposase; Validated

Probab=98.58  E-value=1.9e-07  Score=92.22  Aligned_cols=87  Identities=24%  Similarity=0.364  Sum_probs=54.5

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccc-hHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE-SEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~-~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      ...+++|+||||||||+++.+++.++   |..++.++..++....... ........+...      .++.+|+|||++.
T Consensus       105 ~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l------~~~dLLIIDDlg~  178 (269)
T PRK08181        105 KGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKL------DKFDLLILDDLAY  178 (269)
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHH------hcCCEEEEecccc
Confidence            34689999999999999999998765   5667777766654432110 001122222222      2356999999987


Q ss_pred             cCCCCCCCchhhHHHHHHHHHHHhc
Q 007255          128 LCPRRDHRREQDVRIASQLFTLMDS  152 (611)
Q Consensus       128 l~~~~~~~~~~~~~~~~~ll~~l~~  152 (611)
                      +....        .....|+++++.
T Consensus       179 ~~~~~--------~~~~~Lf~lin~  195 (269)
T PRK08181        179 VTKDQ--------AETSVLFELISA  195 (269)
T ss_pred             ccCCH--------HHHHHHHHHHHH
Confidence            64421        334566666664

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=98.57  E-value=7.2e-07  Score=87.08  Aligned_cols=181  Identities=28%  Similarity=0.369  Sum_probs=96.5

Q ss_pred             CCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcE---EEEcc-ccccc------
Q 007255           22 GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL---TVISP-HSVHK------   91 (611)
Q Consensus        22 ~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~---~~v~~-~~~~~------   91 (611)
                      +|.++..+.|.+++..             .....++|+||.|+|||++++.+.+.+...-   +.+.. .....      
T Consensus         2 ~gR~~el~~l~~~l~~-------------~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~   68 (234)
T PF01637_consen    2 FGREKELEKLKELLES-------------GPSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRSF   68 (234)
T ss_dssp             -S-HHHHHHHHHCHHH---------------SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh-------------hcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHHH
Confidence            5788888888887643             1347999999999999999999999884321   11111 00000      


Q ss_pred             ----------------c------------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccC-CCCCCCchhhHHH
Q 007255           92 ----------------A------------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALC-PRRDHRREQDVRI  142 (611)
Q Consensus        92 ----------------~------------~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~-~~~~~~~~~~~~~  142 (611)
                                      .            ........+..+++.....   ....||+|||++.+. ...     .....
T Consensus        69 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~---~~~~iiviDe~~~~~~~~~-----~~~~~  140 (234)
T PF01637_consen   69 IEETSLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKK---GKKVIIVIDEFQYLAIASE-----EDKDF  140 (234)
T ss_dssp             HHHHHHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHC---HCCEEEEEETGGGGGBCTT-----TTHHH
T ss_pred             HHHHHHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhc---CCcEEEEEecHHHHhhccc-----chHHH
Confidence                            0            0011123344444443322   234899999999997 221     12356


Q ss_pred             HHHHHHHHhcCCCCCCCCCcEEEEEeecCcccc------cHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCC-C-CC
Q 007255          143 ASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI------DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP-L-DA  214 (611)
Q Consensus       143 ~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l------~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~-~-~~  214 (611)
                      ...+.+.++.....    .++.+|.+.......      ...+.  +|+.. +.+++.+.++..+++........ + ..
T Consensus       141 ~~~l~~~~~~~~~~----~~~~~v~~~S~~~~~~~~~~~~~~~~--~~~~~-~~l~~l~~~e~~~~~~~~~~~~~~~~~~  213 (234)
T PF01637_consen  141 LKSLRSLLDSLLSQ----QNVSIVITGSSDSLMEEFLDDKSPLF--GRFSH-IELKPLSKEEAREFLKELFKELIKLPFS  213 (234)
T ss_dssp             HHHHHHHHHH--------TTEEEEEEESSHHHHHHTT-TTSTTT--T---E-EEE----HHHHHHHHHHHHHCC------
T ss_pred             HHHHHHHHhhcccc----CCceEEEECCchHHHHHhhcccCccc--cccce-EEEeeCCHHHHHHHHHHHHHHhhcccCC
Confidence            66777777662221    133344433332111      12232  37765 99999999999999998766651 1 24


Q ss_pred             cccHHHHHHhccCCcc
Q 007255          215 NVDLEAIATSCNGYVG  230 (611)
Q Consensus       215 ~~~~~~la~~~~g~~~  230 (611)
                      +.+++.+...+.|..+
T Consensus       214 ~~~~~~i~~~~gG~P~  229 (234)
T PF01637_consen  214 DEDIEEIYSLTGGNPR  229 (234)
T ss_dssp             HHHHHHHHHHHTT-HH
T ss_pred             HHHHHHHHHHhCCCHH
Confidence            5568888888888654

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=98.56  E-value=6.4e-07  Score=97.02  Aligned_cols=78  Identities=18%  Similarity=0.083  Sum_probs=55.0

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc--------------c------------c--cch
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM--------------Y------------V--GES  368 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~--------------~------------~--g~~  368 (611)
                      |+.+...+|+.||||+|||+++..++.+.   |-+.++++..+-...              +            .  ...
T Consensus       259 G~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~~~~~  338 (484)
T TIGR02655       259 GFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFAYEESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPESAGL  338 (484)
T ss_pred             CccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccccCCh
Confidence            67777889999999999999999988765   444455544222111              0            0  011


Q ss_pred             HHHHHHHHHHHHhcCCcEEEEcccccccc
Q 007255          369 EALLRNTFQRARLAAPSIIFFDEADVVGA  397 (611)
Q Consensus       369 ~~~~~~~~~~a~~~~p~il~iDeid~l~~  397 (611)
                      +..+..+.+.+....|.+++||-+..+..
T Consensus       339 ~~~~~~i~~~i~~~~~~~vvIDsi~~~~~  367 (484)
T TIGR02655       339 EDHLQIIKSEIADFKPARIAIDSLSALAR  367 (484)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEcCHHHHHH
Confidence            55677778888888999999999987753

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PF13173 AAA_14: AAA domain

Probab=98.55  E-value=2.3e-07  Score=81.61  Aligned_cols=69  Identities=23%  Similarity=0.297  Sum_probs=46.5

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhC--CcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAE--ASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~--~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l  395 (611)
                      +.++++||.|||||++++.++....  .+++.++..+.........+  +...+.......+.++||||++.+
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~i~iDEiq~~   73 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPD--LLEYFLELIKPGKKYIFIDEIQYL   73 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhh--hHHHHHHhhccCCcEEEEehhhhh
Confidence            4589999999999999999998876  77777777655432111111  223333322225679999999877

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=98.55  E-value=5.6e-07  Score=94.19  Aligned_cols=195  Identities=19%  Similarity=0.225  Sum_probs=116.9

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM  363 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~  363 (611)
                      ....+++|....-+++.+.+...           ....-.+|++|++||||..+|++|....   +.||+.+||+.+...
T Consensus       138 ~~~~~liG~S~am~~l~~~i~kv-----------A~s~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~  206 (464)
T COG2204         138 SLGGELVGESPAMQQLRRLIAKV-----------APSDASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPEN  206 (464)
T ss_pred             cccCCceecCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHH
Confidence            35677889888888887776531           1333569999999999999999999877   579999999765432


Q ss_pred             ---------cccchHHHHH---HHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-----C
Q 007255          364 ---------YVGESEALLR---NTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-----Q  426 (611)
Q Consensus       364 ---------~~g~~~~~~~---~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----~  426 (611)
                               ..|.+.....   ..|+.|   ....||+|||..+              ...++..||..|..-.     .
T Consensus       207 l~ESELFGhekGAFTGA~~~r~G~fE~A---~GGTLfLDEI~~m--------------pl~~Q~kLLRvLqe~~~~rvG~  269 (464)
T COG2204         207 LLESELFGHEKGAFTGAITRRIGRFEQA---NGGTLFLDEIGEM--------------PLELQVKLLRVLQEREFERVGG  269 (464)
T ss_pred             HHHHHhhcccccCcCCcccccCcceeEc---CCceEEeeccccC--------------CHHHHHHHHHHHHcCeeEecCC
Confidence                     2222211111   123333   3459999999765              3567778887775311     1


Q ss_pred             ----CCCeEEEEecCCCc--ccc-----hhccCCCCccceeecCCCCHHHHH----HHHHHHh----cCCCCC----Ccc
Q 007255          427 ----AKGILVLAATNRPH--AID-----AALMRPGRFDLVLYVPPPDLEARH----EILRVHT----RNMKVG----DDV  483 (611)
Q Consensus       427 ----~~~~~vI~~tn~~~--~ld-----~al~r~gRf~~~i~~~~p~~~~r~----~il~~~~----~~~~~~----~~~  483 (611)
                          .-.+.||++||+.=  .+.     +.|.-  |+. ++.+..|...+|.    -+++.++    ......    +..
T Consensus       270 ~~~i~vdvRiIaaT~~dL~~~v~~G~FReDLyy--RLn-V~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~~~~~~~s~~  346 (464)
T COG2204         270 NKPIKVDVRIIAATNRDLEEEVAAGRFREDLYY--RLN-VVPLRLPPLRERKEDIPLLAEHFLKRFAAELGRPPKGFSPE  346 (464)
T ss_pred             CcccceeeEEEeecCcCHHHHHHcCCcHHHHHh--hhc-cceecCCcccccchhHHHHHHHHHHHHHHHcCCCCCCCCHH
Confidence                11478999998632  222     22322  454 5666667666655    2333333    222211    222


Q ss_pred             cHHHHHHhCC-CCCHHHHHHHHHHHHHHHHH
Q 007255          484 DLRSIAEETE-LFTGAELEGLCREAGIVALR  513 (611)
Q Consensus       484 ~~~~la~~~~-g~s~~~i~~~~~~a~~~a~~  513 (611)
                      .+..|....+ | +-+++++++..+...+-.
T Consensus       347 a~~~L~~y~WPG-NVREL~N~ver~~il~~~  376 (464)
T COG2204         347 ALAALLAYDWPG-NVRELENVVERAVILSEG  376 (464)
T ss_pred             HHHHHHhCCCCh-HHHHHHHHHHHHHhcCCc
Confidence            3344443332 4 557888888877666543

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=98.55  E-value=3.4e-06  Score=86.41  Aligned_cols=199  Identities=18%  Similarity=0.199  Sum_probs=128.1

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecchhhccc-
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSM-  363 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~~~~~~~-  363 (611)
                      ..+.|.+.-.+.+++++..++.         ...+.++.+.|-||||||.+..-+-...     ....+++++..+... 
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle---------~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~  220 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLE---------LNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEAS  220 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhh---------cccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchH
Confidence            3466778778888888775443         3556789999999999999888655443     224467777653321 


Q ss_pred             ---------c----cc-chHHHHHHHHHHHH-hc-CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCC
Q 007255          364 ---------Y----VG-ESEALLRNTFQRAR-LA-APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA  427 (611)
Q Consensus       364 ---------~----~g-~~~~~~~~~~~~a~-~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  427 (611)
                               +    .+ ..+......|.... +. .+-++++||+|.|....           +.++..|. ++.. .+.
T Consensus       221 aiF~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~-----------~~vLy~lF-ewp~-lp~  287 (529)
T KOG2227|consen  221 AIFKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRS-----------QTVLYTLF-EWPK-LPN  287 (529)
T ss_pred             HHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcc-----------cceeeeeh-hccc-CCc
Confidence                     1    11 11223333443332 22 25699999999996221           11222221 1121 367


Q ss_pred             CCeEEEEecCCCcccchhccCC----CCccceeecCCCCHHHHHHHHHHHhcCCCCCCc--ccHHHHHHhCCCCCHHHHH
Q 007255          428 KGILVLAATNRPHAIDAALMRP----GRFDLVLYVPPPDLEARHEILRVHTRNMKVGDD--VDLRSIAEETELFTGAELE  501 (611)
Q Consensus       428 ~~~~vI~~tn~~~~ld~al~r~----gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~--~~~~~la~~~~g~s~~~i~  501 (611)
                      .++++||.+|..+.-|..|-|-    +--...+.|++++.++...|++..+...+....  ..++..|+...|.|| |++
T Consensus       288 sr~iLiGiANslDlTdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SG-DlR  366 (529)
T KOG2227|consen  288 SRIILIGIANSLDLTDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSG-DLR  366 (529)
T ss_pred             ceeeeeeehhhhhHHHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCch-hHH
Confidence            7899999999999877766542    223478999999999999999988877765543  457888888888765 444


Q ss_pred             ---HHHHHHHHHH
Q 007255          502 ---GLCREAGIVA  511 (611)
Q Consensus       502 ---~~~~~a~~~a  511 (611)
                         .+|+.|...+
T Consensus       367 kaLdv~R~aiEI~  379 (529)
T KOG2227|consen  367 KALDVCRRAIEIA  379 (529)
T ss_pred             HHHHHHHHHHHHH
Confidence               4456555544

>PRK09183 transposase/IS protein; Provisional

Probab=98.55  E-value=1.3e-07  Score=93.51  Aligned_cols=72  Identities=26%  Similarity=0.341  Sum_probs=49.3

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccc-hHHHHHHHHHHHHhcCCcEEEEcccccc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGE-SEALLRNTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~-~~~~~~~~~~~a~~~~p~il~iDeid~l  395 (611)
                      ...+++|+||||||||++|.+++..+   |..+..++..++...+... ....+..++... ...+++++|||++..
T Consensus       101 ~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~-~~~~dlLiiDdlg~~  176 (259)
T PRK09183        101 RNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRG-VMAPRLLIIDEIGYL  176 (259)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHH-hcCCCEEEEcccccC
Confidence            34679999999999999999998764   6677777777765433211 111233444433 246679999999765

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.54  E-value=4.7e-07  Score=92.20  Aligned_cols=111  Identities=23%  Similarity=0.335  Sum_probs=65.0

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccc---hHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE---SEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~---~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      .+++|+||+|||||+|+.++|+++   +..++.+++.++.......   ........+...      ....+|+|||+..
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l------~~~DLLIIDDlG~  257 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLL------INCDLLIIDDLGT  257 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHh------ccCCEEEEeccCC
Confidence            789999999999999999999987   6677777776654422110   000011112222      1345999999976


Q ss_pred             cCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC-ccc----ccHHhhccCCc
Q 007255          128 LCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR-VDA----IDPALRRSGRF  185 (611)
Q Consensus       128 l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~-~~~----l~~~l~~~~Rf  185 (611)
                      ....        ......|+.+++.......     .+|.|||. +..    +++++.+  |+
T Consensus       258 e~~t--------~~~~~~Lf~iin~R~~~~k-----~tIiTSNl~~~el~~~~~eri~S--RL  305 (329)
T PRK06835        258 EKIT--------EFSKSELFNLINKRLLRQK-----KMIISTNLSLEELLKTYSERISS--RL  305 (329)
T ss_pred             CCCC--------HHHHHHHHHHHHHHHHCCC-----CEEEECCCCHHHHHHHHhHHHHH--HH
Confidence            5321        1334566666665322211     24555665 333    3556665  54

>PRK12377 putative replication protein; Provisional

Probab=98.52  E-value=4.3e-07  Score=88.65  Aligned_cols=101  Identities=21%  Similarity=0.224  Sum_probs=59.2

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccchH--HHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESE--KALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~~--~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      ..+++|+||||||||+|+.++++.+   +..++.++..++.........  .....++...      .+..+|+|||++.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l~~~~~~~~~~~~~l~~l------~~~dLLiIDDlg~  174 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRLHESYDNGQSGEKFLQEL------CKVDLLVLDEIGI  174 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHHHHHHhccchHHHHHHHh------cCCCEEEEcCCCC
Confidence            3689999999999999999999987   456666666555432211000  0011122221      3466999999965


Q ss_pred             cCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCc
Q 007255          128 LCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV  172 (611)
Q Consensus       128 l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~  172 (611)
                      ....     +   .....|+.+++......     ...|.|||..
T Consensus       175 ~~~s-----~---~~~~~l~~ii~~R~~~~-----~ptiitSNl~  206 (248)
T PRK12377        175 QRET-----K---NEQVVLNQIIDRRTASM-----RSVGMLTNLN  206 (248)
T ss_pred             CCCC-----H---HHHHHHHHHHHHHHhcC-----CCEEEEcCCC
Confidence            4321     1   23455666666533221     2356677863

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=98.52  E-value=1.3e-06  Score=97.87  Aligned_cols=160  Identities=21%  Similarity=0.202  Sum_probs=90.6

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHH--------hhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC-------CcEEee
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAF--------SRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE-------ASFFSL  355 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~--------~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~-------~~~~~~  355 (611)
                      .|.|.+.+|+.+.-.+..........        ....++...++||+|+||||||.+|++++....       .++..+
T Consensus       451 ~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~v  530 (915)
T PTZ00111        451 SIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSV  530 (915)
T ss_pred             eEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccc
Confidence            57899999988765553322110000        001233445899999999999999999998653       222222


Q ss_pred             cchhhccccccchHHHHHHHHH--HHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--------
Q 007255          356 SGAELYSMYVGESEALLRNTFQ--RARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--------  425 (611)
Q Consensus       356 ~~~~~~~~~~g~~~~~~~~~~~--~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------  425 (611)
                      ....... +.+...+..  .++  ........+++|||++.+              .......|+..|+.-.        
T Consensus       531 gLTa~~~-~~d~~tG~~--~le~GaLvlAdgGtL~IDEidkm--------------s~~~Q~aLlEaMEqqtIsI~KaGi  593 (915)
T PTZ00111        531 GLTASIK-FNESDNGRA--MIQPGAVVLANGGVCCIDELDKC--------------HNESRLSLYEVMEQQTVTIAKAGI  593 (915)
T ss_pred             cccchhh-hcccccCcc--cccCCcEEEcCCCeEEecchhhC--------------CHHHHHHHHHHHhCCEEEEecCCc
Confidence            2211110 000000000  000  001122359999999987              2445677777775421        


Q ss_pred             ---CCCCeEEEEecCCCc-------------ccchhccCCCCcccee-ecCCCCHHHHHHH
Q 007255          426 ---QAKGILVLAATNRPH-------------AIDAALMRPGRFDLVL-YVPPPDLEARHEI  469 (611)
Q Consensus       426 ---~~~~~~vI~~tn~~~-------------~ld~al~r~gRf~~~i-~~~~p~~~~r~~i  469 (611)
                         -+.++.||+|+|..+             .+++++++  |||.++ .++.|+.+.=..|
T Consensus       594 ~~tL~ar~rVIAAaNP~~gryd~~~s~~eni~Lp~~LLS--RFDLIf~l~D~~d~~~D~~l  652 (915)
T PTZ00111        594 VATLKAETAILASCNPINSRYNKNKAVIENINISPSLFT--RFDLIYLVLDHIDQDTDQLI  652 (915)
T ss_pred             ceecCCCeEEEEEcCCcccccCcccCcccccCCChHHhh--hhcEEEEecCCCChHHHHHH
Confidence               124789999999642             47789998  999554 3556776544444

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=98.51  E-value=1.7e-06  Score=83.67  Aligned_cols=136  Identities=20%  Similarity=0.237  Sum_probs=77.7

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCC
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPR  131 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~  131 (611)
                      ...+..++||+|||||..++.+|+.+|..++.++|++..+      ...+..+|.-+.+.     ++++.+||+|.|-..
T Consensus        31 ~~~~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~------~~~l~ril~G~~~~-----GaW~cfdefnrl~~~   99 (231)
T PF12774_consen   31 LNLGGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQMD------YQSLSRILKGLAQS-----GAWLCFDEFNRLSEE   99 (231)
T ss_dssp             TTTEEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-------HHHHHHHHHHHHHH-----T-EEEEETCCCSSHH
T ss_pred             cCCCCCCcCCCCCCchhHHHHHHHHhCCeEEEeccccccc------HHHHHHHHHHHhhc-----CchhhhhhhhhhhHH
Confidence            4467789999999999999999999999999999987543      34566667666554     789999999988431


Q ss_pred             CCCCchhhHHHHHHHHHHHhcCCCC-------CCCCCcEEEEEeecCc----ccccHHhhccCCcceEEEccCCCHHHHH
Q 007255          132 RDHRREQDVRIASQLFTLMDSNKPS-------KTSVPHVVVVASTNRV----DAIDPALRRSGRFDAEVEVTVPTAEERF  200 (611)
Q Consensus       132 ~~~~~~~~~~~~~~ll~~l~~~~~~-------~~~~~~v~ii~ttn~~----~~l~~~l~~~~Rf~~~i~~~~p~~~~r~  200 (611)
                      .   -..-...+..+...+......       ..-.+++-++.|+|+.    ..+++.++.  -| +.+.+-.||.....
T Consensus       100 v---LS~i~~~i~~i~~al~~~~~~~~~~g~~i~l~~~~~iFiT~np~y~gr~~LP~nLk~--lF-Rpvam~~PD~~~I~  173 (231)
T PF12774_consen  100 V---LSVISQQIQSIQDALRAKQKSFTLEGQEIKLNPNCGIFITMNPGYAGRSELPENLKA--LF-RPVAMMVPDLSLIA  173 (231)
T ss_dssp             H---HHHHHHHHHHHHHHHHCTSSEEEETTCEEE--TT-EEEEEE-B-CCCC--S-HHHCT--TE-EEEE--S--HHHHH
T ss_pred             H---HHHHHHHHHHHHHhhcccccccccCCCEEEEccceeEEEeeccccCCcccCCHhHHH--Hh-heeEEeCCCHHHHH
Confidence            0   000001112222222221110       0112245667777753    478888886  44 58999999987766


Q ss_pred             HHHH
Q 007255          201 EILK  204 (611)
Q Consensus       201 ~Il~  204 (611)
                      +++-
T Consensus       174 ei~L  177 (231)
T PF12774_consen  174 EILL  177 (231)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.50  E-value=5.2e-07  Score=97.44  Aligned_cols=197  Identities=18%  Similarity=0.225  Sum_probs=111.7

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccc
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV   94 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~   94 (611)
                      +..++|.....+.+.+.+...           .....+++++|++||||+++|+++....   +.+++.++|..+.....
T Consensus       138 ~~~lig~s~~~~~l~~~i~~~-----------a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~~~~  206 (445)
T TIGR02915       138 LRGLITSSPGMQKICRTIEKI-----------APSDITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPENLL  206 (445)
T ss_pred             ccceeecCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCChHHH
Confidence            345666666666655544321           1234689999999999999999998765   45899999987632211


Q ss_pred             cchHHHHHHHHHHHH-----------hhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CC
Q 007255           95 GESEKALREAFSQAS-----------SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KT  158 (611)
Q Consensus        95 ~~~~~~l~~~f~~~~-----------~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~  158 (611)
                            -..+|....           .......++.|||||++.|.+          ..+..|+..++.....     ..
T Consensus       207 ------~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~~i~~l~~----------~~q~~l~~~l~~~~~~~~~~~~~  270 (445)
T TIGR02915       207 ------ESELFGYEKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPL----------NLQAKLLRFLQERVIERLGGREE  270 (445)
T ss_pred             ------HHHhcCCCCCCcCCCccCCCCceeECCCCEEEEechhhCCH----------HHHHHHHHHHhhCeEEeCCCCce
Confidence                  011121100           001123467999999998865          6788888888764311     11


Q ss_pred             CCCcEEEEEeecCc-------ccccHHhhccCCcceEEEccCCCHHHHHH----HHHHhhcCC----CCC-Ccc---cHH
Q 007255          159 SVPHVVVVASTNRV-------DAIDPALRRSGRFDAEVEVTVPTAEERFE----ILKLYTKKV----PLD-ANV---DLE  219 (611)
Q Consensus       159 ~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~----Il~~~~~~~----~~~-~~~---~~~  219 (611)
                      ...++.+|++|+..       ..+.+.|..  |+. .+.+..|...+|.+    ++++++...    ... ...   -+.
T Consensus       271 ~~~~~rii~~~~~~l~~~~~~~~~~~~L~~--~l~-~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~  347 (445)
T TIGR02915       271 IPVDVRIVCATNQDLKRMIAEGTFREDLFY--RIA-EISITIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALR  347 (445)
T ss_pred             eeeceEEEEecCCCHHHHHHcCCccHHHHH--Hhc-cceecCCCchhchhhHHHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            22357888888764       234455544  543 34555555555543    444444322    111 111   133


Q ss_pred             HHHHhccCCccccHHHHHHHHHHHH
Q 007255          220 AIATSCNGYVGADLEALCREATMSA  244 (611)
Q Consensus       220 ~la~~~~g~~~~dl~~l~~~a~~~a  244 (611)
                      .+....=-.+.++|++++..++..+
T Consensus       348 ~L~~~~wpgNvreL~~~i~~a~~~~  372 (445)
T TIGR02915       348 ALEAHAWPGNVRELENKVKRAVIMA  372 (445)
T ss_pred             HHHhCCCCChHHHHHHHHHHHHHhC
Confidence            3333221224577888888777543

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.49  E-value=2.2e-07  Score=93.96  Aligned_cols=70  Identities=19%  Similarity=0.234  Sum_probs=49.1

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccch-HHHHHHHHHHHHhcCCcEEEEccccc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGES-EALLRNTFQRARLAAPSIIFFDEADV  394 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~-~~~~~~~~~~a~~~~p~il~iDeid~  394 (611)
                      ..+|++|+||+|||||+|+.|+|+++   |.++..+..+++........ .......++..  ...++|+|||+..
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~lk~~~~~~~~~~~l~~l--~~~dlLiIDDiG~  228 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAV--KEAPVLMLDDIGA  228 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHhcCcHHHHHHHh--cCCCEEEEecCCC
Confidence            45789999999999999999999998   77788888777765432211 11122333332  3456999999964

>PF13173 AAA_14: AAA domain

Probab=98.49  E-value=9.5e-07  Score=77.72  Aligned_cols=120  Identities=24%  Similarity=0.373  Sum_probs=72.6

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhC--CcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECG--AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCP  130 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~--~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~  130 (611)
                      .+.++|.||.|||||++++.+++.+.  .+++.++..+..........  +.+.+.+..    ..++.++||||++.+. 
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~--~~~~~~~~~----~~~~~~i~iDEiq~~~-   74 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPD--LLEYFLELI----KPGKKYIFIDEIQYLP-   74 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhh--hHHHHHHhh----ccCCcEEEEehhhhhc-
Confidence            35789999999999999999999887  77888887765432111100  222222221    1246799999998763 


Q ss_pred             CCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc----ccHHhhccCCcceEEEccCCCHHHH
Q 007255          131 RRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA----IDPALRRSGRFDAEVEVTVPTAEER  199 (611)
Q Consensus       131 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~----l~~~l~~~~Rf~~~i~~~~p~~~~r  199 (611)
                                .+...+-.+.+..       .++.+|.|++....    ....+  .||.. .+++.+++..|.
T Consensus        75 ----------~~~~~lk~l~d~~-------~~~~ii~tgS~~~~l~~~~~~~l--~gr~~-~~~l~Plsf~E~  127 (128)
T PF13173_consen   75 ----------DWEDALKFLVDNG-------PNIKIILTGSSSSLLSKDIAESL--AGRVI-EIELYPLSFREF  127 (128)
T ss_pred             ----------cHHHHHHHHHHhc-------cCceEEEEccchHHHhhcccccC--CCeEE-EEEECCCCHHHh
Confidence                      3444455555532       12344444443332    23344  44764 788888887663

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.48  E-value=9.1e-07  Score=86.18  Aligned_cols=70  Identities=26%  Similarity=0.424  Sum_probs=46.4

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccc---hHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE---SEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~---~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      .+++|+|+||||||+++.++++++   +..++.++..++.......   .......+++..      .+..+|+|||++.
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l~~~~~~~~~~~~~~l~~l------~~~dlLvIDDig~  173 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAMKDTFSNSETSEEQLLNDL------SNVDLLVIDEIGV  173 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHHHHHHhhccccHHHHHHHh------ccCCEEEEeCCCC
Confidence            589999999999999999999988   6677777766654322111   001111222222      2356999999976


Q ss_pred             cC
Q 007255          128 LC  129 (611)
Q Consensus       128 l~  129 (611)
                      ..
T Consensus       174 ~~  175 (244)
T PRK07952        174 QT  175 (244)
T ss_pred             CC
Confidence            54

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=98.48  E-value=2.6e-06  Score=84.74  Aligned_cols=147  Identities=14%  Similarity=0.199  Sum_probs=99.2

Q ss_pred             cHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEE--------EEccc--------
Q 007255           24 NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT--------VISPH--------   87 (611)
Q Consensus        24 ~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~--------~v~~~--------   87 (611)
                      +..+++.|..++..            -+.+..+||+||  +||+++|+.+|+.+.+.-.        .-+|.        
T Consensus         7 q~~~~~~L~~~~~~------------~rl~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HP   72 (290)
T PRK07276          7 QPKVFQRFQTILEQ------------DRLNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFS   72 (290)
T ss_pred             HHHHHHHHHHHHHc------------CCcceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            45556666665533            245678999996  6899999999987743210        00000        


Q ss_pred             cccccc-cc--chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           88 SVHKAH-VG--ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        88 ~~~~~~-~~--~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      ++..-. .|  -....++++.......+..+...|++||++|.|..          ...+.|++.+++      ++.+++
T Consensus        73 D~~~i~p~~~~I~idqIR~l~~~~~~~p~~~~~kV~II~~ad~m~~----------~AaNaLLKtLEE------Pp~~t~  136 (290)
T PRK07276         73 DVTVIEPQGQVIKTDTIRELVKNFSQSGYEGKQQVFIIKDADKMHV----------NAANSLLKVIEE------PQSEIY  136 (290)
T ss_pred             CeeeecCCCCcCCHHHHHHHHHHHhhCcccCCcEEEEeehhhhcCH----------HHHHHHHHHhcC------CCCCeE
Confidence            111000 01  22456666666666555556677999999999854          568999999997      445688


Q ss_pred             EEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHH
Q 007255          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILK  204 (611)
Q Consensus       165 ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~  204 (611)
                      +|.+|+.++.+-|.++|  |+. .+.|+. +.++..+++.
T Consensus       137 ~iL~t~~~~~lLpTI~S--Rcq-~i~f~~-~~~~~~~~L~  172 (290)
T PRK07276        137 IFLLTNDENKVLPTIKS--RTQ-IFHFPK-NEAYLIQLLE  172 (290)
T ss_pred             EEEEECChhhCchHHHH--cce-eeeCCC-cHHHHHHHHH
Confidence            88889999999999999  884 788866 5666666664

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.48  E-value=6.4e-08  Score=90.04  Aligned_cols=70  Identities=23%  Similarity=0.347  Sum_probs=46.8

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccch-HHHHHHHHHHHHhcCCcEEEEccccc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGES-EALLRNTFQRARLAAPSIIFFDEADV  394 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~-~~~~~~~~~~a~~~~p~il~iDeid~  394 (611)
                      ...+++|+||||||||++|.++++++   |..+..++.+++........ .......++..  ...++|+|||+..
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l--~~~dlLilDDlG~  119 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRL--KRVDLLILDDLGY  119 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHH--HTSSCEEEETCTS
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCcc--ccccEecccccce
Confidence            34689999999999999999999877   88888899888876432210 11122333333  3456999999853

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>PRK06921 hypothetical protein; Provisional

Probab=98.47  E-value=3.4e-07  Score=90.83  Aligned_cols=69  Identities=23%  Similarity=0.299  Sum_probs=46.0

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh----CCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEccccc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADV  394 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~  394 (611)
                      ...+++|+||||+|||+|+.|+|+++    +..++.++..++........ ......+..  ....++|+|||++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~~-~~~~~~~~~--~~~~dlLiIDDl~~  188 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDDF-DLLEAKLNR--MKKVEVLFIDDLFK  188 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHHH-HHHHHHHHH--hcCCCEEEEecccc
Confidence            35689999999999999999999986    56677777766654321111 111122222  23456999999954

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=98.45  E-value=2.2e-06  Score=93.18  Aligned_cols=198  Identities=18%  Similarity=0.231  Sum_probs=111.9

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccc
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV   94 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~   94 (611)
                      +.+++|.....+.+.+.+...           .....++++.|++|||||++|+++....   +.+++.++|..+.....
T Consensus       137 ~~~lig~s~~~~~l~~~~~~~-----------~~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~~~  205 (469)
T PRK10923        137 TTDIIGEAPAMQDVFRIIGRL-----------SRSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLI  205 (469)
T ss_pred             cccceecCHHHHHHHHHHHHH-----------hccCCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHHHH
Confidence            345666665555555444221           1235789999999999999999998876   46899999987632110


Q ss_pred             cchHHHHHHHHHHHHh-----------hhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC-----C
Q 007255           95 GESEKALREAFSQASS-----------HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK-----T  158 (611)
Q Consensus        95 ~~~~~~l~~~f~~~~~-----------~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-----~  158 (611)
                            -..+|.....           ......++.|||||++.|..          ..+..|+..++......     .
T Consensus       206 ------~~~lfg~~~g~~~~~~~~~~g~~~~a~~Gtl~l~~i~~l~~----------~~q~~L~~~l~~~~~~~~~~~~~  269 (469)
T PRK10923        206 ------ESELFGHEKGAFTGANTIRQGRFEQADGGTLFLDEIGDMPL----------DVQTRLLRVLADGQFYRVGGYAP  269 (469)
T ss_pred             ------HHHhcCCCCCCCCCCCcCCCCCeeECCCCEEEEeccccCCH----------HHHHHHHHHHhcCcEEeCCCCCe
Confidence                  1112211100           01122467899999998865          66788888887643211     1


Q ss_pred             CCCcEEEEEeecCc-------ccccHHhhccCCcc-eEEEccCCC--HHHHHHHHHHhhcCC----CCCC-cc---cHHH
Q 007255          159 SVPHVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPT--AEERFEILKLYTKKV----PLDA-NV---DLEA  220 (611)
Q Consensus       159 ~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf~-~~i~~~~p~--~~~r~~Il~~~~~~~----~~~~-~~---~~~~  220 (611)
                      ...++.+|++|+..       ..+.+.+..  |+. ..|.+|+..  .++...++.+++...    .... ..   -+..
T Consensus       270 ~~~~~rii~~~~~~l~~~~~~~~~~~~L~~--~l~~~~i~~PpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~  347 (469)
T PRK10923        270 VKVDVRIIAATHQNLEQRVQEGKFREDLFH--RLNVIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPETEAA  347 (469)
T ss_pred             EEeeEEEEEeCCCCHHHHHHcCCchHHHHH--HhcceeecCCCcccchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHH
Confidence            12356888888753       145566665  663 345555542  234444555555432    1111 11   1233


Q ss_pred             HHHhccCCccccHHHHHHHHHHHH
Q 007255          221 IATSCNGYVGADLEALCREATMSA  244 (611)
Q Consensus       221 la~~~~g~~~~dl~~l~~~a~~~a  244 (611)
                      +....=-.+-++|+++++.++..+
T Consensus       348 L~~~~wpgNv~eL~~~i~~~~~~~  371 (469)
T PRK10923        348 LTRLAWPGNVRQLENTCRWLTVMA  371 (469)
T ss_pred             HHhCCCCChHHHHHHHHHHHHHhC
Confidence            322221224477888888776544

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=98.45  E-value=4.6e-06  Score=83.79  Aligned_cols=130  Identities=10%  Similarity=0.161  Sum_probs=91.0

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCc-------------EEEEcccccccccccchHHHHHHHHHHHHhhhhc-CCC
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAH-------------LTVISPHSVHKAHVGESEKALREAFSQASSHALS-GKP  117 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~-------------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~-~~~  117 (611)
                      .+...||+|+.|+||+.+++.+++.+.+.             +..++..   +  ..-....++.+.+.....+.. +..
T Consensus        17 l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~---g--~~i~vd~Ir~l~~~~~~~~~~~~~~   91 (299)
T PRK07132         17 ISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIF---D--KDLSKSEFLSAINKLYFSSFVQSQK   91 (299)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccC---C--CcCCHHHHHHHHHHhccCCcccCCc
Confidence            44678899999999999999999987331             1222100   0  011223455554444333322 366


Q ss_pred             eEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHH
Q 007255          118 SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE  197 (611)
Q Consensus       118 ~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~  197 (611)
                      -|++||++|.+..          ...+.|+..+++      +++.+++|.+|+.++.+-+.+++  |+. .+.|.+|+.+
T Consensus        92 KvvII~~~e~m~~----------~a~NaLLK~LEE------Pp~~t~~il~~~~~~kll~TI~S--Rc~-~~~f~~l~~~  152 (299)
T PRK07132         92 KILIIKNIEKTSN----------SLLNALLKTIEE------PPKDTYFLLTTKNINKVLPTIVS--RCQ-VFNVKEPDQQ  152 (299)
T ss_pred             eEEEEecccccCH----------HHHHHHHHHhhC------CCCCeEEEEEeCChHhChHHHHh--CeE-EEECCCCCHH
Confidence            7999999988743          567889999997      34456777777788899999998  874 8999999999


Q ss_pred             HHHHHHHH
Q 007255          198 ERFEILKL  205 (611)
Q Consensus       198 ~r~~Il~~  205 (611)
                      +..+.+..
T Consensus       153 ~l~~~l~~  160 (299)
T PRK07132        153 KILAKLLS  160 (299)
T ss_pred             HHHHHHHH
Confidence            98887765

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.44  E-value=4.1e-07  Score=81.17  Aligned_cols=86  Identities=20%  Similarity=0.335  Sum_probs=56.5

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCC---cEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCC
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEA---SFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRG  400 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~---~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~  400 (611)
                      ...++|+|++||||+++|+++....+.   +++.+++.++.           ..+++.+   .+..|||+|+|.+-    
T Consensus        21 ~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~-----------~~~l~~a---~~gtL~l~~i~~L~----   82 (138)
T PF14532_consen   21 SSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP-----------AELLEQA---KGGTLYLKNIDRLS----   82 (138)
T ss_dssp             SS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC-----------HHHHHHC---TTSEEEEECGCCS-----
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc-----------HHHHHHc---CCCEEEECChHHCC----
Confidence            356999999999999999999987753   55555555432           2233333   66699999999882    


Q ss_pred             CCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCC
Q 007255          401 GSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR  438 (611)
Q Consensus       401 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~  438 (611)
                                ......|+..++..+ ..++.+|++|..
T Consensus        83 ----------~~~Q~~L~~~l~~~~-~~~~RlI~ss~~  109 (138)
T PF14532_consen   83 ----------PEAQRRLLDLLKRQE-RSNVRLIASSSQ  109 (138)
T ss_dssp             ----------HHHHHHHHHHHHHCT-TTTSEEEEEECC
T ss_pred             ----------HHHHHHHHHHHHhcC-CCCeEEEEEeCC
Confidence                      445566666665433 445566655554

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=98.43  E-value=1.1e-05  Score=89.02  Aligned_cols=53  Identities=25%  Similarity=0.381  Sum_probs=43.7

Q ss_pred             ccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC
Q 007255           12 NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA   79 (611)
Q Consensus        12 ~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~   79 (611)
                      +.....+++++|++++++.|..++..               +.+++|+||||||||++++++++.+..
T Consensus        24 ~~~~~~~~~vigq~~a~~~L~~~~~~---------------~~~~l~~G~~G~GKttla~~l~~~l~~   76 (637)
T PRK13765         24 EVPERLIDQVIGQEHAVEVIKKAAKQ---------------RRHVMMIGSPGTGKSMLAKAMAELLPK   76 (637)
T ss_pred             ccCcccHHHcCChHHHHHHHHHHHHh---------------CCeEEEECCCCCcHHHHHHHHHHHcCh
Confidence            34446779999999999998887643               248999999999999999999988753

>PRK06526 transposase; Provisional

Probab=98.43  E-value=2.7e-07  Score=90.80  Aligned_cols=87  Identities=21%  Similarity=0.331  Sum_probs=50.6

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccc-hHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE-SEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~-~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      .+.+++|+||||||||+++.+++.++   |..+..+++.++....... ....+...+..      ..++.+|+|||++.
T Consensus        97 ~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~------l~~~dlLIIDD~g~  170 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAGRLQAELVK------LGRYPLLIVDEVGY  170 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHH------hccCCEEEEccccc
Confidence            35789999999999999999998875   4455445544433221100 00011111211      12367999999987


Q ss_pred             cCCCCCCCchhhHHHHHHHHHHHhc
Q 007255          128 LCPRRDHRREQDVRIASQLFTLMDS  152 (611)
Q Consensus       128 l~~~~~~~~~~~~~~~~~ll~~l~~  152 (611)
                      +....        .....++.+++.
T Consensus       171 ~~~~~--------~~~~~L~~li~~  187 (254)
T PRK06526        171 IPFEP--------EAANLFFQLVSS  187 (254)
T ss_pred             CCCCH--------HHHHHHHHHHHH
Confidence            64321        333455566654

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=98.43  E-value=2.2e-06  Score=83.08  Aligned_cols=124  Identities=12%  Similarity=0.039  Sum_probs=84.0

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccc--------------ccccccc---cchHHHHHHHHHHHHhhhh-
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH--------------SVHKAHV---GESEKALREAFSQASSHAL-  113 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~--------------~~~~~~~---~~~~~~l~~~f~~~~~~~~-  113 (611)
                      +|..+||+||+|+||..+|.++|+.+-+.--.-.|.              ++.--.+   .-....++++-+....... 
T Consensus         6 ~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~e   85 (261)
T PRK05818          6 KTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSVE   85 (261)
T ss_pred             CCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCchh
Confidence            567899999999999999999998874321000010              1110000   1123344444444332221 


Q ss_pred             cCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccC
Q 007255          114 SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV  193 (611)
Q Consensus       114 ~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~  193 (611)
                      .+..-|++|+++|.|..          ...+.|+..+++      ++.++++|.+|+.++.+.|.++|  |+. .+.++.
T Consensus        86 ~~~~KV~II~~ae~m~~----------~AaNaLLK~LEE------Pp~~t~fiLit~~~~~lLpTI~S--RCq-~~~~~~  146 (261)
T PRK05818         86 SNGKKIYIIYGIEKLNK----------QSANSLLKLIEE------PPKNTYGIFTTRNENNILNTILS--RCV-QYVVLS  146 (261)
T ss_pred             cCCCEEEEeccHhhhCH----------HHHHHHHHhhcC------CCCCeEEEEEECChHhCchHhhh--hee-eeecCC
Confidence            23456999999998854          678999999997      55678999999999999999999  874 677777


Q ss_pred             C
Q 007255          194 P  194 (611)
Q Consensus       194 p  194 (611)
                      +
T Consensus       147 ~  147 (261)
T PRK05818        147 K  147 (261)
T ss_pred             h
Confidence            6

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.41  E-value=8.4e-07  Score=95.83  Aligned_cols=165  Identities=22%  Similarity=0.247  Sum_probs=97.9

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchHHHHHHHHHH---------------HHhcCCc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQR---------------ARLAAPS  385 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---------------a~~~~p~  385 (611)
                      ..+++++|++||||+++|+++....   +.+|+.+++..+.....      -..+|..               .....+.
T Consensus       162 ~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~~~~------~~~lfg~~~~~~~~~~~~~~g~~~~a~~g  235 (445)
T TIGR02915       162 DITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPENLL------ESELFGYEKGAFTGAVKQTLGKIEYAHGG  235 (445)
T ss_pred             CCCEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCChHHH------HHHhcCCCCCCcCCCccCCCCceeECCCC
Confidence            3568999999999999999998776   46899999887632110      0111110               1113356


Q ss_pred             EEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--C-------CCCeEEEEecCCCc-------ccchhccCC
Q 007255          386 IIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--Q-------AKGILVLAATNRPH-------AIDAALMRP  449 (611)
Q Consensus       386 il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--~-------~~~~~vI~~tn~~~-------~ld~al~r~  449 (611)
                      .|||||++.+.              ...+..|+..++.-.  .       ..++.+|++|+..-       .+.+.|.. 
T Consensus       236 tl~l~~i~~l~--------------~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~~~~~L~~-  300 (445)
T TIGR02915       236 TLFLDEIGDLP--------------LNLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQDLKRMIAEGTFREDLFY-  300 (445)
T ss_pred             EEEEechhhCC--------------HHHHHHHHHHHhhCeEEeCCCCceeeeceEEEEecCCCHHHHHHcCCccHHHHH-
Confidence            99999999882              456677777775321  1       12577888887652       23333433 


Q ss_pred             CCccceeecCCCCHHHHHH----HHHHHhcC----CCC----CCcccHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 007255          450 GRFDLVLYVPPPDLEARHE----ILRVHTRN----MKV----GDDVDLRSIAEETELFTGAELEGLCREAGIVA  511 (611)
Q Consensus       450 gRf~~~i~~~~p~~~~r~~----il~~~~~~----~~~----~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a  511 (611)
                       |+. .+.+..|...+|..    +++.+++.    +..    .++..+..|.....--+-+++++++..|...+
T Consensus       301 -~l~-~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~i~~a~~~~  372 (445)
T TIGR02915       301 -RIA-EISITIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALRALEAHAWPGNVRELENKVKRAVIMA  372 (445)
T ss_pred             -Hhc-cceecCCCchhchhhHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHhCCCCChHHHHHHHHHHHHHhC
Confidence             443 34455566655553    33333322    121    12334566666554336788888888777543

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=98.41  E-value=6.9e-06  Score=90.00  Aligned_cols=78  Identities=22%  Similarity=0.097  Sum_probs=50.8

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc--------------------------cc--cch
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM--------------------------YV--GES  368 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~--------------------------~~--g~~  368 (611)
                      |++....++++||||+|||+++..++.+.   |.+.+.++..+-...                          +.  ...
T Consensus       269 G~~~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~~~~i~~~~~~~g~~~~~~~~~g~l~i~~~~~~~~~~  348 (509)
T PRK09302        269 GFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEESRAQLIRNARSWGIDLEKMEEKGLLKIICARPESYGL  348 (509)
T ss_pred             CCCCCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCCHHHHHHHHHHcCCChHHHhhcCCceeecCCcccCCH
Confidence            56677778999999999999999888654   455555433211100                          00  011


Q ss_pred             HHHHHHHHHHHHhcCCcEEEEcccccccc
Q 007255          369 EALLRNTFQRARLAAPSIIFFDEADVVGA  397 (611)
Q Consensus       369 ~~~~~~~~~~a~~~~p~il~iDeid~l~~  397 (611)
                      +..+..+........+.+++||-+..+..
T Consensus       349 ~~~~~~i~~~i~~~~~~~vVIDslt~l~~  377 (509)
T PRK09302        349 EDHLIIIKREIEEFKPSRVAIDPLSALAR  377 (509)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEcCHHHHHH
Confidence            33445555566667889999999988753

>PRK06921 hypothetical protein; Provisional

Probab=98.40  E-value=1.7e-06  Score=85.83  Aligned_cols=69  Identities=25%  Similarity=0.332  Sum_probs=42.8

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l----~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      ...+++|+||||||||+|+.++|+++    +..++.++..++....... .......+..      ..+..+|+|||++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~-~~~~~~~~~~------~~~~dlLiIDDl~~  188 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDD-FDLLEAKLNR------MKKVEVLFIDDLFK  188 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHH-HHHHHHHHHH------hcCCCEEEEecccc
Confidence            35789999999999999999999986    4556666654443221100 0011111111      12356999999943

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=98.40  E-value=3.7e-06  Score=82.63  Aligned_cols=166  Identities=17%  Similarity=0.342  Sum_probs=103.8

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHH---HhCCcEEEEccccccc----
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVR---ECGAHLTVISPHSVHK----   91 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~---~l~~~~~~v~~~~~~~----   91 (611)
                      ..+.|..+.-+.+.+++.......         ..+.++++||.|+|||+++.....   +.|-+++.+.......    
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~g---------EsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~   94 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHG---------ESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKI   94 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhc---------CCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHH
Confidence            356788888888888876543322         347999999999999999886543   5666776665432211    


Q ss_pred             -----------------ccccchHHHHHHHHHHHHhhhhcCC-CeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcC
Q 007255           92 -----------------AHVGESEKALREAFSQASSHALSGK-PSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN  153 (611)
Q Consensus        92 -----------------~~~~~~~~~l~~~f~~~~~~~~~~~-~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~  153 (611)
                                       ...|.....+..++...+......+ +.|.++||+|..++..         -+..+++++|-.
T Consensus        95 al~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~---------rQtllYnlfDis  165 (408)
T KOG2228|consen   95 ALKGITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHS---------RQTLLYNLFDIS  165 (408)
T ss_pred             HHHHHHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccch---------hhHHHHHHHHHH
Confidence                             1123333444444444333322222 3456678999887642         245566777654


Q ss_pred             CCCCCCCCcEEEEEeecCcc---cccHHhhccCCcceE-EEccCC-CHHHHHHHHHHhh
Q 007255          154 KPSKTSVPHVVVVASTNRVD---AIDPALRRSGRFDAE-VEVTVP-TAEERFEILKLYT  207 (611)
Q Consensus       154 ~~~~~~~~~v~ii~ttn~~~---~l~~~l~~~~Rf~~~-i~~~~p-~~~~r~~Il~~~~  207 (611)
                      .....   ++.+|+.|.+.+   .+..++.+  ||.+. |+++++ +..+...+++..+
T Consensus       166 qs~r~---Piciig~Ttrld~lE~LEKRVKS--RFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  166 QSARA---PICIIGVTTRLDILELLEKRVKS--RFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             hhcCC---CeEEEEeeccccHHHHHHHHHHh--hcccceeeccCCCChHHHHHHHHHHh
Confidence            43322   467777777654   66789998  99865 555544 7778888888765

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.39  E-value=1.3e-06  Score=77.03  Aligned_cols=98  Identities=20%  Similarity=0.256  Sum_probs=60.1

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh--------CCcEEeecchhhccc--------------cc--cchHHHHHHHHHHH
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA--------EASFFSLSGAELYSM--------------YV--GESEALLRNTFQRA  379 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~--------~~~~~~~~~~~~~~~--------------~~--g~~~~~~~~~~~~a  379 (611)
                      .+.++++||||+|||++++.++...        ..+++.++.+.....              ..  .........+.+..
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            3568999999999999999999987        667777766544310              11  12334445555555


Q ss_pred             HhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEec
Q 007255          380 RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAAT  436 (611)
Q Consensus       380 ~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~t  436 (611)
                      ......+|+|||+|.+.             ....++.|...++  ...-.++++|+.
T Consensus        84 ~~~~~~~lviDe~~~l~-------------~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHLF-------------SDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHCTEEEEEEETTHHHH-------------THHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HhcCCeEEEEeChHhcC-------------CHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            55555699999999873             1456666655555  233344555443

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.35  E-value=1.5e-05  Score=83.17  Aligned_cols=215  Identities=15%  Similarity=0.236  Sum_probs=115.4

Q ss_pred             cccccccc------ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 007255            8 MSEHNEKW------KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (611)
Q Consensus         8 ~~~~~~~~------~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~   81 (611)
                      .....+.|      ++++++.=...-+.++++++.......      ..-..+-+||+||+||||||.++.+++++|..+
T Consensus        65 ~~d~~elW~eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~~~------~~l~~~iLLltGPsGcGKSTtvkvLskelg~~~  138 (634)
T KOG1970|consen   65 KEDEFELWVEKYKPRTLEELAVHKKKISEVKQWLKQVAEFT------PKLGSRILLLTGPSGCGKSTTVKVLSKELGYQL  138 (634)
T ss_pred             CccccchhHHhcCcccHHHHhhhHHhHHHHHHHHHHHHHhc------cCCCceEEEEeCCCCCCchhHHHHHHHhhCcee
Confidence            34455566      666777777777788888876211100      011235789999999999999999999999998


Q ss_pred             EEEccc-------ccccccccch------HHHHHHHHHHHHhh--------hhcCCCeEEEEccccccCCCCCCCchhhH
Q 007255           82 TVISPH-------SVHKAHVGES------EKALREAFSQASSH--------ALSGKPSVVFIDEIDALCPRRDHRREQDV  140 (611)
Q Consensus        82 ~~v~~~-------~~~~~~~~~~------~~~l~~~f~~~~~~--------~~~~~~~il~IDeid~l~~~~~~~~~~~~  140 (611)
                      +..+..       .+.+...+..      -..+......+..+        .....+.+|+|||+=..+...      ..
T Consensus       139 ~Ew~Npi~~~~~~~~h~~t~~~~~~~~s~L~~fesFler~~kyg~l~~~g~~~~~~~~liLveDLPn~~~~d------~~  212 (634)
T KOG1970|consen  139 IEWSNPINLKEPENLHNETSFLMFPYQSQLAVFESFLLRATKYGSLQMSGDDLRTDKKLILVEDLPNQFYRD------DS  212 (634)
T ss_pred             eeecCCccccccccccccchhcccchhhHHHHHHHHHHHHHhhchhhhcccccccCceEEEeeccchhhhhh------hH
Confidence            887622       2222111111      11122222222110        012346689999986554421      22


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc------ccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCC--
Q 007255          141 RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA------IDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPL--  212 (611)
Q Consensus       141 ~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~------l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~--  212 (611)
                      +.++..+..+-...    ..+-|++|.-+...+.      ....+.-..|.. .|.|.+-...-+.+.++..+.....  
T Consensus       213 ~~f~evL~~y~s~g----~~PlIf~iTd~~~~g~nnq~rlf~~d~q~~~ri~-~IsFNPIa~T~MKK~L~ric~~e~~~~  287 (634)
T KOG1970|consen  213 ETFREVLRLYVSIG----RCPLIFIITDSLSNGNNNQDRLFPKDIQEEPRIS-NISFNPIAPTIMKKFLKRICRIEANKK  287 (634)
T ss_pred             HHHHHHHHHHHhcC----CCcEEEEEeccccCCCcchhhhchhhhhhccCcc-eEeecCCcHHHHHHHHHHHHHHhcccc
Confidence            33333343333221    1222333333333332      223333334654 7899999988888888877654321  


Q ss_pred             -----CCcccHHHHHHhccCCccccHHHHHHHHHHH
Q 007255          213 -----DANVDLEAIATSCNGYVGADLEALCREATMS  243 (611)
Q Consensus       213 -----~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~  243 (611)
                           .....++.++..+    ++||+..+......
T Consensus       288 s~~k~~~~~~v~~i~~~s----~GDIRsAInsLQls  319 (634)
T KOG1970|consen  288 SGIKVPDTAEVELICQGS----GGDIRSAINSLQLS  319 (634)
T ss_pred             cCCcCchhHHHHHHHHhc----CccHHHHHhHhhhh
Confidence                 1233355555544    45676665544433

>PRK09183 transposase/IS protein; Provisional

Probab=98.33  E-value=1.2e-06  Score=86.79  Aligned_cols=88  Identities=22%  Similarity=0.331  Sum_probs=52.6

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccc-hHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE-SEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~-~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      ...+++|+||||||||+++.+++..+   |..+..++..++....... ....+...+...     ...+.+++|||++.
T Consensus       101 ~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~-----~~~~dlLiiDdlg~  175 (259)
T PRK09183        101 RNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRG-----VMAPRLLIIDEIGY  175 (259)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHH-----hcCCCEEEEccccc
Confidence            45689999999999999999997664   5566666655544221100 001122333321     12467999999976


Q ss_pred             cCCCCCCCchhhHHHHHHHHHHHhc
Q 007255          128 LCPRRDHRREQDVRIASQLFTLMDS  152 (611)
Q Consensus       128 l~~~~~~~~~~~~~~~~~ll~~l~~  152 (611)
                      .....        .....|+.+++.
T Consensus       176 ~~~~~--------~~~~~lf~li~~  192 (259)
T PRK09183        176 LPFSQ--------EEANLFFQVIAK  192 (259)
T ss_pred             CCCCh--------HHHHHHHHHHHH
Confidence            53321        233456666654

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=98.32  E-value=1.9e-06  Score=93.49  Aligned_cols=131  Identities=18%  Similarity=0.299  Sum_probs=80.5

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccchHHHHHHHHHHHH-----------hhhhcCCC
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQAS-----------SHALSGKP  117 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~-----------~~~~~~~~  117 (611)
                      ...++++.|++||||+++++++....   +.+++.++|..+.....      -..+|....           .......+
T Consensus       165 ~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~~~~------~~~lfg~~~~~~~~~~~~~~g~~~~a~~  238 (457)
T PRK11361        165 SQASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESLL------ESELFGHEKGAFTGAQTLRQGLFERANE  238 (457)
T ss_pred             CCcEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCHHHH------HHHhcCCCCCCCCCCCCCCCCceEECCC
Confidence            34689999999999999999997764   46899999987642110      011111100           00112346


Q ss_pred             eEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCcEEEEEeecCc-------ccccHHhhccCCc
Q 007255          118 SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVVVVASTNRV-------DAIDPALRRSGRF  185 (611)
Q Consensus       118 ~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf  185 (611)
                      ++|||||++.|.+          ..+..|+..++.....     .....++.+|++|+..       ..+.+.+..  |+
T Consensus       239 gtl~ld~i~~l~~----------~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~l~~~~~~g~~~~~l~~--~l  306 (457)
T PRK11361        239 GTLLLDEIGEMPL----------VLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGTFREDLFY--RL  306 (457)
T ss_pred             CEEEEechhhCCH----------HHHHHHHHHHhcCcEEeCCCCceeeeceEEEEeCCCCHHHHHHcCCchHHHHH--Hh
Confidence            7999999999865          5678888888764211     1112357889988763       133444443  44


Q ss_pred             ceEEEccCCCHHHHHH
Q 007255          186 DAEVEVTVPTAEERFE  201 (611)
Q Consensus       186 ~~~i~~~~p~~~~r~~  201 (611)
                      . .+.+..|...+|.+
T Consensus       307 ~-~~~i~~ppLreR~~  321 (457)
T PRK11361        307 N-VIHLILPPLRDRRE  321 (457)
T ss_pred             c-cceecCCChhhchh
Confidence            3 35556665555543

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.31  E-value=4.1e-06  Score=91.65  Aligned_cols=186  Identities=14%  Similarity=0.080  Sum_probs=119.7

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhC--CcEEeecchhhccccccchHHHHHHHHHH---------HHhcCCcEEEEcccc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAE--ASFFSLSGAELYSMYVGESEALLRNTFQR---------ARLAAPSIIFFDEAD  393 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~--~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---------a~~~~p~il~iDeid  393 (611)
                      .|+++.|++|+||++++++++..+.  .+|+.+..+.-....+|...  +...+..         ....+..|||+||+.
T Consensus        26 gGv~i~g~~G~~ks~~~r~l~~llp~~~p~r~~p~~~t~~~L~Gg~D--l~~~l~~g~~~~~pGlla~Ah~GvL~lDe~n  103 (584)
T PRK13406         26 GGVVLRARAGPVRDRWLAALRALLPAGTPLRRLPPGIADDRLLGGLD--LAATLRAGRPVAQRGLLAEADGGVLVLAMAE  103 (584)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhcCCCCCcccCCCCCcHHHccCCch--HHhHhhcCCcCCCCCceeeccCCEEEecCcc
Confidence            5899999999999999999999885  48887776655555555431  1111111         011233599999998


Q ss_pred             cccccCCCCCCCCcchhHHHHHHHHHHhcCC-----------CCCCCeEEEEecCCC---cccchhccCCCCccceeecC
Q 007255          394 VVGAKRGGSSSTSITVGERLLSTLLTEMDGL-----------EQAKGILVLAATNRP---HAIDAALMRPGRFDLVLYVP  459 (611)
Q Consensus       394 ~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~-----------~~~~~~~vI~~tn~~---~~ld~al~r~gRf~~~i~~~  459 (611)
                      .+              ...+++.|+..|+.-           ..+.++++|++.|..   +.+.++++.  ||+..+.++
T Consensus       104 ~~--------------~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLD--Rf~l~v~v~  167 (584)
T PRK13406        104 RL--------------EPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALAD--RLAFHLDLD  167 (584)
T ss_pred             cC--------------CHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHh--heEEEEEcC
Confidence            76              367889999988632           123568888864322   348889998  999999999


Q ss_pred             CCCHHHHH-------HHHH--HHhcCCCCCCcccHHHHHHhC--CCC-CHHHHHHHHHHHHHHHHHhhcccccccHHHHH
Q 007255          460 PPDLEARH-------EILR--VHTRNMKVGDDVDLRSIAEET--ELF-TGAELEGLCREAGIVALREDISATAVRNRHFQ  527 (611)
Q Consensus       460 ~p~~~~r~-------~il~--~~~~~~~~~~~~~~~~la~~~--~g~-s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~  527 (611)
                      .|+..+..       .|..  ..+.+..+ ++..+..++..+  -|. |.+.-..+++-|...|..+.  ...++.+|+.
T Consensus       168 ~~~~~~~~~~~~~~~~I~~AR~rl~~v~v-~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~G--r~~V~~~dv~  244 (584)
T PRK13406        168 GLALRDAREIPIDADDIAAARARLPAVGP-PPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAG--RTAVEEEDLA  244 (584)
T ss_pred             CCChHHhcccCCCHHHHHHHHHHHccCCC-CHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcC--CCCCCHHHHH
Confidence            88765421       2333  22222222 222334443332  254 66777777777777666553  4567888888


Q ss_pred             HHHh
Q 007255          528 TVKD  531 (611)
Q Consensus       528 ~~l~  531 (611)
                      .++.
T Consensus       245 ~Aa~  248 (584)
T PRK13406        245 LAAR  248 (584)
T ss_pred             HHHH
Confidence            7764

>PF05729 NACHT: NACHT domain

Probab=98.31  E-value=9.1e-06  Score=74.67  Aligned_cols=143  Identities=17%  Similarity=0.265  Sum_probs=74.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCC---------cEEEEccccccccccc-chHHHHHHHHHH--------HHhhhhcCC
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGA---------HLTVISPHSVHKAHVG-ESEKALREAFSQ--------ASSHALSGK  116 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~---------~~~~v~~~~~~~~~~~-~~~~~l~~~f~~--------~~~~~~~~~  116 (611)
                      -++++|+||+|||++++.++..+..         -.+.++..+....... .....+...+..        .........
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   81 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNK   81 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCC
Confidence            5899999999999999999887621         1223333332221110 111111110000        001112345


Q ss_pred             CeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc--cccHHhhccCCcceEEEccCC
Q 007255          117 PSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD--AIDPALRRSGRFDAEVEVTVP  194 (611)
Q Consensus       117 ~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~--~l~~~l~~~~Rf~~~i~~~~p  194 (611)
                      ..+++||.+|.+......  .........+..++....     .+++-++.|+++..  .+...+..    ...+.+++.
T Consensus        82 ~~llilDglDE~~~~~~~--~~~~~~~~~l~~l~~~~~-----~~~~~liit~r~~~~~~~~~~~~~----~~~~~l~~~  150 (166)
T PF05729_consen   82 RVLLILDGLDELEEQDQS--QERQRLLDLLSQLLPQAL-----PPGVKLIITSRPRAFPDLRRRLKQ----AQILELEPF  150 (166)
T ss_pred             ceEEEEechHhcccchhh--hHHHHHHHHHHHHhhhcc-----CCCCeEEEEEcCChHHHHHHhcCC----CcEEEECCC
Confidence            778999999998764321  111123333444444311     11344555554422  22223322    146899999


Q ss_pred             CHHHHHHHHHHhhc
Q 007255          195 TAEERFEILKLYTK  208 (611)
Q Consensus       195 ~~~~r~~Il~~~~~  208 (611)
                      +.+++.++++.++.
T Consensus       151 ~~~~~~~~~~~~f~  164 (166)
T PF05729_consen  151 SEEDIKQYLRKYFS  164 (166)
T ss_pred             CHHHHHHHHHHHhh
Confidence            99999999988765

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=98.31  E-value=1.4e-06  Score=92.62  Aligned_cols=173  Identities=18%  Similarity=0.190  Sum_probs=93.0

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHHhcC-CCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccc-ccccccccch
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQKLG-LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH-SVHKAHVGES   97 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g-~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~-~~~~~~~~~~   97 (611)
                      +|.|+|++|+-|.-.+--  .........| .+..-||||+|.||||||.+.+++++.+..-.++=... .-.......+
T Consensus       430 sIye~edvKkglLLqLfG--Gt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVt  507 (804)
T KOG0478|consen  430 SIYELEDVKKGLLLQLFG--GTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVT  507 (804)
T ss_pred             hhhcccchhhhHHHHHhc--CCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchhcceeeEE
Confidence            567777777766433311  1222223333 34457999999999999999999999874433221100 0000000000


Q ss_pred             -HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-------CCCCCcEEEEEee
Q 007255           98 -EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-------KTSVPHVVVVAST  169 (611)
Q Consensus        98 -~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-------~~~~~~v~ii~tt  169 (611)
                       +...+++.-+. ........+|..|||+|+|..          ...+-|.+.|+...-+       ..-+.+.-|+|++
T Consensus       508 rd~dtkqlVLes-GALVLSD~GiCCIDEFDKM~d----------StrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaA  576 (804)
T KOG0478|consen  508 KDPDTRQLVLES-GALVLSDNGICCIDEFDKMSD----------STRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAAA  576 (804)
T ss_pred             ecCccceeeeec-CcEEEcCCceEEchhhhhhhH----------HHHHHHHHHHHHhhhhHhhcceeeeccccceeeeee
Confidence             00000110000 001122356999999999844          2234455555542111       1122345789999


Q ss_pred             cCcc-------------cccHHhhccCCcceEE-EccCCCHHHHHHHHHHhh
Q 007255          170 NRVD-------------AIDPALRRSGRFDAEV-EVTVPTAEERFEILKLYT  207 (611)
Q Consensus       170 n~~~-------------~l~~~l~~~~Rf~~~i-~~~~p~~~~r~~Il~~~~  207 (611)
                      |+.+             .|+|.|++  ||+.++ -++.||...=+.+..+..
T Consensus       577 NP~~skynp~k~i~eNI~LpptLLS--RFDLIylllD~~DE~~Dr~La~Hiv  626 (804)
T KOG0478|consen  577 NPIRSKYNPNKSIIENINLPPTLLS--RFDLIFLLLDKPDERSDRRLADHIV  626 (804)
T ss_pred             ccccccCCCCCchhhccCCChhhhh--hhcEEEEEecCcchhHHHHHHHHHH
Confidence            9743             67899999  998653 567777764455555544

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.30  E-value=4.8e-07  Score=84.15  Aligned_cols=100  Identities=23%  Similarity=0.376  Sum_probs=55.6

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccch-HHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGES-EKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~-~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      .+.+++|+||||||||++|.++++++   |..+..++..++........ .......+....      +..+|+|||+..
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~------~~dlLilDDlG~  119 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLK------RVDLLILDDLGY  119 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHH------TSSCEEEETCTS
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCccc------cccEecccccce
Confidence            45799999999999999999998876   67777777776653321110 011122222222      245999999954


Q ss_pred             cCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC
Q 007255          128 LCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (611)
Q Consensus       128 l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~  171 (611)
                      ...        .......++.+++.....     . ..|.|||.
T Consensus       120 ~~~--------~~~~~~~l~~ii~~R~~~-----~-~tIiTSN~  149 (178)
T PF01695_consen  120 EPL--------SEWEAELLFEIIDERYER-----K-PTIITSNL  149 (178)
T ss_dssp             S-----------HHHHHCTHHHHHHHHHT-------EEEEEESS
T ss_pred             eee--------cccccccchhhhhHhhcc-----c-CeEeeCCC
Confidence            321        112344555666543211     1 24557886

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.30  E-value=3e-06  Score=83.48  Aligned_cols=68  Identities=29%  Similarity=0.397  Sum_probs=45.9

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccccccc-----chHHHHHHHHHHHHhhhhcCCCeEEEEc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVG-----ESEKALREAFSQASSHALSGKPSVVFID  123 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~-----~~~~~l~~~f~~~~~~~~~~~~~il~ID  123 (611)
                      .+.+++|+||||||||+++-++++++   |..+..++..++......     .....+...         ..+..+|+||
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~---------l~~~dlLIiD  174 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRE---------LKKVDLLIID  174 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHH---------hhcCCEEEEe
Confidence            45799999999999999999999887   566777777666533211     111111111         1235599999


Q ss_pred             ccccc
Q 007255          124 EIDAL  128 (611)
Q Consensus       124 eid~l  128 (611)
                      |+-..
T Consensus       175 DlG~~  179 (254)
T COG1484         175 DIGYE  179 (254)
T ss_pred             cccCc
Confidence            99654

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.30  E-value=4e-06  Score=91.03  Aligned_cols=173  Identities=20%  Similarity=0.291  Sum_probs=102.3

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccchHHHHHHHHHHH-----------HhhhhcCCC
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQA-----------SSHALSGKP  117 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~-----------~~~~~~~~~  117 (611)
                      ...++++.|.+||||+++++++....   +.+++.++|..+.....   .   ..+|...           ........+
T Consensus       156 ~~~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~~~~---~---~~lfg~~~~~~~~~~~~~~g~~~~a~~  229 (463)
T TIGR01818       156 SDITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPKDLI---E---SELFGHEKGAFTGANTRRQGRFEQADG  229 (463)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCHHHH---H---HHhcCCCCCCCCCcccCCCCcEEECCC
Confidence            34689999999999999999998765   46899999987633211   0   0111100           000112346


Q ss_pred             eEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCcEEEEEeecCc-------ccccHHhhccCCc
Q 007255          118 SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVVVVASTNRV-------DAIDPALRRSGRF  185 (611)
Q Consensus       118 ~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf  185 (611)
                      +.|||||++.|..          ..+..|+..++.....     .....++.+|++|+..       ..+.+.+..  |+
T Consensus       230 gtl~l~ei~~l~~----------~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~f~~~L~~--rl  297 (463)
T TIGR01818       230 GTLFLDEIGDMPL----------DAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEALVRQGKFREDLFH--RL  297 (463)
T ss_pred             CeEEEEchhhCCH----------HHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHHHHHHcCCcHHHHHH--Hh
Confidence            7899999998865          5678888888764311     1112356788888753       134455554  55


Q ss_pred             c-eEEEccCCC--HHHHHHHHHHhhcCCC----CC-Cccc---HHHHHHhccCCc--cccHHHHHHHHHHHH
Q 007255          186 D-AEVEVTVPT--AEERFEILKLYTKKVP----LD-ANVD---LEAIATSCNGYV--GADLEALCREATMSA  244 (611)
Q Consensus       186 ~-~~i~~~~p~--~~~r~~Il~~~~~~~~----~~-~~~~---~~~la~~~~g~~--~~dl~~l~~~a~~~a  244 (611)
                      . ..|++|+..  .++...++++++....    .. ....   +..+...  ++.  -++|++++..++..+
T Consensus       298 ~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~--~wpgNvreL~~~~~~~~~~~  367 (463)
T TIGR01818       298 NVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQL--RWPGNVRQLENLCRWLTVMA  367 (463)
T ss_pred             CcceecCCCcccchhhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhC--CCCChHHHHHHHHHHHHHhC
Confidence            3 366777765  4566667766654321    11 1111   2333322  343  477888888877554

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>KOG1808 consensus AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.28  E-value=2.1e-06  Score=102.05  Aligned_cols=140  Identities=24%  Similarity=0.348  Sum_probs=89.8

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc--cccc----chHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK--AHVG----ESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~--~~~~----~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      .++||.||.|+|||.++..+|+..|.+++.++-++..+  .+.|    .....  -.|+........-+++++++|+++.
T Consensus       441 ~pillqG~tssGKtsii~~la~~~g~~~vrinnhehtd~qeyig~y~~~~~g~--l~freg~LV~Alr~G~~~vlD~lnl  518 (1856)
T KOG1808|consen  441 FPILLQGPTSSGKTSIIKELARATGKNIVRINNHEHTDLQEYIGTYVADDNGD--LVFREGVLVQALRNGDWIVLDELNL  518 (1856)
T ss_pred             CCeEEecCcCcCchhHHHHHHHHhccCceehhccccchHHHHHHhhhcCCCCC--eeeehhHHHHHHHhCCEEEeccccc
Confidence            58999999999999999999999999999987654321  1111    00000  0111111111122478999999975


Q ss_pred             cCCCCCCCchhhHHHHHHHHHHHhcCCCC--------CCCCCcEEEEEeecCccc------ccHHhhccCCcceEEEccC
Q 007255          128 LCPRRDHRREQDVRIASQLFTLMDSNKPS--------KTSVPHVVVVASTNRVDA------IDPALRRSGRFDAEVEVTV  193 (611)
Q Consensus       128 l~~~~~~~~~~~~~~~~~ll~~l~~~~~~--------~~~~~~v~ii~ttn~~~~------l~~~l~~~~Rf~~~i~~~~  193 (611)
                      ...          .++..|.++++.+..-        ....+.+++++|-|++..      +..+++.  ||. .++|..
T Consensus       519 a~~----------dvL~aLnrllddnRel~ipe~~rlv~~h~~f~lfatqn~~~~y~grk~lsRa~~~--rf~-e~~f~~  585 (1856)
T KOG1808|consen  519 APH----------DVLEALNRLLDDNRELFIPETQRLVKAHPEFMLFATQNPPGTYGGRKILSRALRN--RFI-ELHFDD  585 (1856)
T ss_pred             cch----------HHHHHHHhhhhhhccccccccceeeccCcchhhhhhccCccccchhhhhhhcccc--cch-hhhhhh
Confidence            533          5677777777763322        223456778888888753      3455555  764 677777


Q ss_pred             CCHHHHHHHHHHhhc
Q 007255          194 PTAEERFEILKLYTK  208 (611)
Q Consensus       194 p~~~~r~~Il~~~~~  208 (611)
                      -..++...|+.+.+.
T Consensus       586 ~~e~e~~~i~~~~~~  600 (1856)
T KOG1808|consen  586 IGEEELEEILEHRCG  600 (1856)
T ss_pred             cCchhhhhhhccccc
Confidence            777787778776554

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.28  E-value=1.5e-06  Score=76.62  Aligned_cols=87  Identities=25%  Similarity=0.407  Sum_probs=49.8

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh--------CCcEEEEccccccc--------------cccc-chHHHHHHHHHHHH
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC--------GAHLTVISPHSVHK--------------AHVG-ESEKALREAFSQAS  109 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l--------~~~~~~v~~~~~~~--------------~~~~-~~~~~l~~~f~~~~  109 (611)
                      ...++++||||+|||++++.+++.+        ..+++.+++.....              .... .....+.+.+....
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            4689999999999999999999987        66677766543220              0011 11222222222222


Q ss_pred             hhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh
Q 007255          110 SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (611)
Q Consensus       110 ~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~  151 (611)
                      ..   ....+|+|||+|.+. .        ......|..+++
T Consensus        84 ~~---~~~~~lviDe~~~l~-~--------~~~l~~l~~l~~  113 (131)
T PF13401_consen   84 DR---RRVVLLVIDEADHLF-S--------DEFLEFLRSLLN  113 (131)
T ss_dssp             HH---CTEEEEEEETTHHHH-T--------HHHHHHHHHHTC
T ss_pred             Hh---cCCeEEEEeChHhcC-C--------HHHHHHHHHHHh
Confidence            21   223599999999874 1        255566655555

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=98.27  E-value=2.7e-05  Score=77.12  Aligned_cols=155  Identities=21%  Similarity=0.306  Sum_probs=97.7

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA   92 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~   92 (611)
                      ..|+.++|.....+.+.+.-..          +. ....++|+.|.+||||-.+|+++....   ..+|+.+||..+...
T Consensus       201 ~~F~~~v~~S~~mk~~v~qA~k----------~A-mlDAPLLI~GeTGTGKdLlAkaCH~~S~R~~~pFlalNCA~lPe~  269 (511)
T COG3283         201 SGFEQIVAVSPKMKHVVEQAQK----------LA-MLDAPLLITGETGTGKDLLAKACHLASPRHSKPFLALNCASLPED  269 (511)
T ss_pred             cchHHHhhccHHHHHHHHHHHH----------hh-ccCCCeEEecCCCchHHHHHHHHhhcCcccCCCeeEeecCCCchh
Confidence            4566677776666665443211          11 123689999999999999999986544   678999999876532


Q ss_pred             c-----ccch--HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCC-----CC
Q 007255           93 H-----VGES--EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKT-----SV  160 (611)
Q Consensus        93 ~-----~~~~--~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~-----~~  160 (611)
                      .     +|..  ......+|+.+.       ++-+|+|||..|.+          +++..|+.++.+......     ..
T Consensus       270 ~aEsElFG~apg~~gk~GffE~An-------gGTVlLDeIgEmSp----------~lQaKLLRFL~DGtFRRVGee~Ev~  332 (511)
T COG3283         270 AAESELFGHAPGDEGKKGFFEQAN-------GGTVLLDEIGEMSP----------RLQAKLLRFLNDGTFRRVGEDHEVH  332 (511)
T ss_pred             HhHHHHhcCCCCCCCccchhhhcc-------CCeEEeehhhhcCH----------HHHHHHHHHhcCCceeecCCcceEE
Confidence            1     1111  122345566554       56899999976654          889999999987543222     12


Q ss_pred             CcEEEEEeecCc-------ccccHHhhccCCcceEEEccCCCHHHHHH
Q 007255          161 PHVVVVASTNRV-------DAIDPALRRSGRFDAEVEVTVPTAEERFE  201 (611)
Q Consensus       161 ~~v~ii~ttn~~-------~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~  201 (611)
                      -+|.||++|..+       ..+.+.+.-  |.. ++.+..|...+|.+
T Consensus       333 vdVRVIcatq~nL~~lv~~g~fReDLfy--RLN-VLtl~~PpLRer~~  377 (511)
T COG3283         333 VDVRVICATQVNLVELVQKGKFREDLFY--RLN-VLTLNLPPLRERPQ  377 (511)
T ss_pred             EEEEEEecccccHHHHHhcCchHHHHHH--Hhh-eeeecCCccccCcc
Confidence            468899998763       133444433  553 55666665555443

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.25  E-value=1.3e-05  Score=87.85  Aligned_cols=132  Identities=15%  Similarity=0.186  Sum_probs=90.2

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCC--cEEEEcccccccccccchHHHHHHHHHHHHh-----hhhcCCCeEEEEcccc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGA--HLTVISPHSVHKAHVGESEKALREAFSQASS-----HALSGKPSVVFIDEID  126 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~--~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~-----~~~~~~~~il~IDeid  126 (611)
                      .+++|.|+.|||||+++++++..+..  +|+.+..+.......|..+  +...+.....     .....+.+|||+||++
T Consensus        26 gGv~i~g~~G~~ks~~~r~l~~llp~~~p~r~~p~~~t~~~L~Gg~D--l~~~l~~g~~~~~pGlla~Ah~GvL~lDe~n  103 (584)
T PRK13406         26 GGVVLRARAGPVRDRWLAALRALLPAGTPLRRLPPGIADDRLLGGLD--LAATLRAGRPVAQRGLLAEADGGVLVLAMAE  103 (584)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhcCCCCCcccCCCCCcHHHccCCch--HHhHhhcCCcCCCCCceeeccCCEEEecCcc
Confidence            58999999999999999999999864  7776665544433333211  1111111110     0012245799999998


Q ss_pred             ccCCCCCCCchhhHHHHHHHHHHHhcCC-------CCCCCCCcEEEEEeecCc---ccccHHhhccCCcceEEEccCCCH
Q 007255          127 ALCPRRDHRREQDVRIASQLFTLMDSNK-------PSKTSVPHVVVVASTNRV---DAIDPALRRSGRFDAEVEVTVPTA  196 (611)
Q Consensus       127 ~l~~~~~~~~~~~~~~~~~ll~~l~~~~-------~~~~~~~~v~ii~ttn~~---~~l~~~l~~~~Rf~~~i~~~~p~~  196 (611)
                      .+.+          .++..|+..|+...       .+...+.++++|++.|..   ..+++.+..  ||+..+.++.|+.
T Consensus       104 ~~~~----------~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLD--Rf~l~v~v~~~~~  171 (584)
T PRK13406        104 RLEP----------GTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALAD--RLAFHLDLDGLAL  171 (584)
T ss_pred             cCCH----------HHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHh--heEEEEEcCCCCh
Confidence            7755          78999999998742       222345678999985543   368999998  9999999998876


Q ss_pred             HHH
Q 007255          197 EER  199 (611)
Q Consensus       197 ~~r  199 (611)
                      .+.
T Consensus       172 ~~~  174 (584)
T PRK13406        172 RDA  174 (584)
T ss_pred             HHh
Confidence            643

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=98.23  E-value=1.2e-05  Score=87.45  Aligned_cols=200  Identities=18%  Similarity=0.193  Sum_probs=113.5

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcccccc
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVG  366 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g  366 (611)
                      .+++|.....+.+.+.+..           -......+++.|++|||||++|+++....   +.+|+.++++.+...   
T Consensus       138 ~~lig~s~~~~~l~~~~~~-----------~~~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~---  203 (469)
T PRK10923        138 TDIIGEAPAMQDVFRIIGR-----------LSRSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKD---  203 (469)
T ss_pred             ccceecCHHHHHHHHHHHH-----------HhccCCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHH---
Confidence            3566665555555444432           01233469999999999999999999876   578999999776321   


Q ss_pred             chHHHHHHHHHH---------------HHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--C---
Q 007255          367 ESEALLRNTFQR---------------ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--Q---  426 (611)
Q Consensus       367 ~~~~~~~~~~~~---------------a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--~---  426 (611)
                         ..-..+|..               .....+..+||||++.+.              ...+..|+..++...  .   
T Consensus       204 ---~~~~~lfg~~~g~~~~~~~~~~g~~~~a~~Gtl~l~~i~~l~--------------~~~q~~L~~~l~~~~~~~~~~  266 (469)
T PRK10923        204 ---LIESELFGHEKGAFTGANTIRQGRFEQADGGTLFLDEIGDMP--------------LDVQTRLLRVLADGQFYRVGG  266 (469)
T ss_pred             ---HHHHHhcCCCCCCCCCCCcCCCCCeeECCCCEEEEeccccCC--------------HHHHHHHHHHHhcCcEEeCCC
Confidence               111112211               111234589999999872              455677777775321  0   


Q ss_pred             ----CCCeEEEEecCCCc-------ccchhccCCCCcc-ceeecCCCCH--HHHHHHHHHHhcC----CCC----CCccc
Q 007255          427 ----AKGILVLAATNRPH-------AIDAALMRPGRFD-LVLYVPPPDL--EARHEILRVHTRN----MKV----GDDVD  484 (611)
Q Consensus       427 ----~~~~~vI~~tn~~~-------~ld~al~r~gRf~-~~i~~~~p~~--~~r~~il~~~~~~----~~~----~~~~~  484 (611)
                          .-++.+|+||+..-       .+.+.|..  |+. ..|.+|+...  ++...+++.+++.    ...    .++..
T Consensus       267 ~~~~~~~~rii~~~~~~l~~~~~~~~~~~~L~~--~l~~~~i~~PpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a  344 (469)
T PRK10923        267 YAPVKVDVRIIAATHQNLEQRVQEGKFREDLFH--RLNVIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPET  344 (469)
T ss_pred             CCeEEeeEEEEEeCCCCHHHHHHcCCchHHHHH--HhcceeecCCCcccchhhHHHHHHHHHHHHHHHcCCCCCCcCHHH
Confidence                12467888887532       24445554  663 4555544322  3333455444322    111    12334


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHH
Q 007255          485 LRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQ  527 (611)
Q Consensus       485 ~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~  527 (611)
                      +..|.....--+-++++++++.+...+-     ...|+..|+.
T Consensus       345 ~~~L~~~~wpgNv~eL~~~i~~~~~~~~-----~~~i~~~~l~  382 (469)
T PRK10923        345 EAALTRLAWPGNVRQLENTCRWLTVMAA-----GQEVLIQDLP  382 (469)
T ss_pred             HHHHHhCCCCChHHHHHHHHHHHHHhCC-----CCcccHHHCc
Confidence            5666665553467888998887766442     2235555553

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=98.22  E-value=1e-05  Score=78.48  Aligned_cols=137  Identities=17%  Similarity=0.177  Sum_probs=80.9

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC-----CcEEEEccccccccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG-----AHLTVISPHSVHKAH   93 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~-----~~~~~v~~~~~~~~~   93 (611)
                      ..+.||.-+++.+...+...+..+.      -++|.-+=|+|++||||+++++.+|+.+-     .+++..-..+..-..
T Consensus        82 ~~lfGQHla~~~Vv~alk~~~~n~~------p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~  155 (344)
T KOG2170|consen   82 RALFGQHLAKQLVVNALKSHWANPN------PRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPH  155 (344)
T ss_pred             HHhhchHHHHHHHHHHHHHHhcCCC------CCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCC
Confidence            4578998899988888876544432      24567788999999999999999999873     222221111111011


Q ss_pred             ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC-CCCCcEEEEEeecC
Q 007255           94 VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK-TSVPHVVVVASTNR  171 (611)
Q Consensus        94 ~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-~~~~~v~ii~ttn~  171 (611)
                      ....+..-.++-.+.......++.+++++||+|.|.+          .++..+--.+|...... ..-.+.++|.-+|.
T Consensus       156 ~~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp~----------gLld~lkpfLdyyp~v~gv~frkaIFIfLSN~  224 (344)
T KOG2170|consen  156 ASKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKLPP----------GLLDVLKPFLDYYPQVSGVDFRKAIFIFLSNA  224 (344)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhcCCceEEechhhhcCH----------hHHHHHhhhhccccccccccccceEEEEEcCC
Confidence            1111111222233333333456778999999999966          56777777777533221 12224455555554

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.21  E-value=4.4e-06  Score=90.77  Aligned_cols=185  Identities=19%  Similarity=0.208  Sum_probs=102.7

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccc-----c----chHHHHHHHHHHHHhcCCcEEEEccc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYV-----G----ESEALLRNTFQRARLAAPSIIFFDEA  392 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~-----g----~~~~~~~~~~~~a~~~~p~il~iDei  392 (611)
                      ..+++.|++||||+++|+++....   +.+|+.+++..+.....     |    .................+..|||||+
T Consensus       158 ~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~ei  237 (463)
T TIGR01818       158 ITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPKDLIESELFGHEKGAFTGANTRRQGRFEQADGGTLFLDEI  237 (463)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCHHHHHHHhcCCCCCCCCCcccCCCCcEEECCCCeEEEEch
Confidence            468999999999999999998775   56899999876632110     0    00000000000011223569999999


Q ss_pred             ccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--C-------CCCeEEEEecCCCc-------ccchhccCCCCcc-ce
Q 007255          393 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--Q-------AKGILVLAATNRPH-------AIDAALMRPGRFD-LV  455 (611)
Q Consensus       393 d~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--~-------~~~~~vI~~tn~~~-------~ld~al~r~gRf~-~~  455 (611)
                      +.+.              ......|+..++.-.  .       .-.+.+|++|+..-       .+.+.|..  |+. ..
T Consensus       238 ~~l~--------------~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~f~~~L~~--rl~~~~  301 (463)
T TIGR01818       238 GDMP--------------LDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEALVRQGKFREDLFH--RLNVIR  301 (463)
T ss_pred             hhCC--------------HHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHHHHHHcCCcHHHHHH--HhCcce
Confidence            9872              345667777665321  0       11467887877542       23334443  444 35


Q ss_pred             eecCCCC--HHHHHHHHHHHhcCC----C----CCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHH
Q 007255          456 LYVPPPD--LEARHEILRVHTRNM----K----VGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRH  525 (611)
Q Consensus       456 i~~~~p~--~~~r~~il~~~~~~~----~----~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~  525 (611)
                      |.+|+..  .++...+++.+++.+    .    ..++..+..|.....--+-+++++++..+...+..     ..|+..|
T Consensus       302 i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~~~~~~~~~~~-----~~i~~~~  376 (463)
T TIGR01818       302 IHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQLRWPGNVRQLENLCRWLTVMASG-----DEVLVSD  376 (463)
T ss_pred             ecCCCcccchhhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCC-----CcccHHh
Confidence            6665544  345555555443322    1    11233355555554322568888888887765532     2355555


Q ss_pred             HHHHH
Q 007255          526 FQTVK  530 (611)
Q Consensus       526 ~~~~l  530 (611)
                      +...+
T Consensus       377 l~~~~  381 (463)
T TIGR01818       377 LPAEL  381 (463)
T ss_pred             chHHH
Confidence            54333

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=98.21  E-value=1.3e-06  Score=89.74  Aligned_cols=167  Identities=22%  Similarity=0.242  Sum_probs=85.8

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHH---hcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccc----cc-
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQ---KLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS----VH-   90 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~---~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~----~~-   90 (611)
                      ..|.|.+.+|..+.-.+    .......   ....+..-|+||+|.||||||.+.+.+++......+.-..+.    +. 
T Consensus        24 P~i~g~~~iK~aill~L----~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~pr~v~~~g~~~s~~gLta   99 (331)
T PF00493_consen   24 PSIYGHEDIKKAILLQL----FGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLAPRSVYTSGKGSSAAGLTA   99 (331)
T ss_dssp             STTTT-HHHHHHHCCCC----TT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-SSEEEEECCGSTCCCCCE
T ss_pred             CcCcCcHHHHHHHHHHH----HhccccccccccccccccceeeccchhhhHHHHHHHHHhhCCceEEECCCCcccCCccc
Confidence            35889888877663322    2111100   011234579999999999999999988665544333221111    11 


Q ss_pred             ----cccccchHHHHH-HHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC-------C
Q 007255           91 ----KAHVGESEKALR-EAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK-------T  158 (611)
Q Consensus        91 ----~~~~~~~~~~l~-~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-------~  158 (611)
                          +...++  ..+. ..+-       ...++|++|||+|.+-.          .....|++.|+...-+.       +
T Consensus       100 ~~~~d~~~~~--~~leaGalv-------lad~GiccIDe~dk~~~----------~~~~~l~eaMEqq~isi~kagi~~~  160 (331)
T PF00493_consen  100 SVSRDPVTGE--WVLEAGALV-------LADGGICCIDEFDKMKE----------DDRDALHEAMEQQTISIAKAGIVTT  160 (331)
T ss_dssp             EECCCGGTSS--ECEEE-HHH-------HCTTSEEEECTTTT--C----------HHHHHHHHHHHCSCEEECTSSSEEE
T ss_pred             eeccccccce--eEEeCCchh-------cccCceeeecccccccc----------hHHHHHHHHHHcCeeccchhhhccc
Confidence                000111  0000 0111       12467999999998854          44678888998743211       1


Q ss_pred             CCCcEEEEEeecCcc-------------cccHHhhccCCcceEEEc-cCCCHHHHHHHHHHhhcCC
Q 007255          159 SVPHVVVVASTNRVD-------------AIDPALRRSGRFDAEVEV-TVPTAEERFEILKLYTKKV  210 (611)
Q Consensus       159 ~~~~v~ii~ttn~~~-------------~l~~~l~~~~Rf~~~i~~-~~p~~~~r~~Il~~~~~~~  210 (611)
                      .+.+..|++++|+..             .+++.+.+  ||+..+.+ +.|+.+.-..+.++.+...
T Consensus       161 l~ar~svlaa~NP~~g~~~~~~~~~~ni~l~~~LLS--RFDLif~l~D~~d~~~D~~la~~il~~~  224 (331)
T PF00493_consen  161 LNARCSVLAAANPKFGRYDPNKSLSENINLPPPLLS--RFDLIFLLRDKPDEEEDERLAEHILDSH  224 (331)
T ss_dssp             EE---EEEEEE--TT--S-TTS-CGCCT-S-CCCHC--C-SEEECC--TTT-HHHHHHHHHHHTTT
T ss_pred             ccchhhhHHHHhhhhhhcchhhhhHHhcccchhhHh--hcCEEEEeccccccccccccceEEEecc
Confidence            234578999999865             46788888  99976554 6677666666666665543

; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.

>PRK15115 response regulator GlrR; Provisional

Probab=98.19  E-value=1.4e-05  Score=86.40  Aligned_cols=173  Identities=18%  Similarity=0.250  Sum_probs=98.4

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccchHHHHHHHHHHHHh-----------hhhcCCC
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQASS-----------HALSGKP  117 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~-----------~~~~~~~  117 (611)
                      ...+++++|++|||||++|+++.+..   +.+++.++|..+.....      -..+|.....           ......+
T Consensus       156 ~~~~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~~~~------~~~lfg~~~~~~~~~~~~~~g~~~~a~~  229 (444)
T PRK15115        156 SDVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQLL------ESELFGHARGAFTGAVSNREGLFQAAEG  229 (444)
T ss_pred             CCCeEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCHHHH------HHHhcCCCcCCCCCCccCCCCcEEECCC
Confidence            34689999999999999999998775   46899999987632211      0112211100           1112346


Q ss_pred             eEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCcEEEEEeecCcccccHHhhccCCcc------
Q 007255          118 SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVVVVASTNRVDAIDPALRRSGRFD------  186 (611)
Q Consensus       118 ~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~------  186 (611)
                      +.|||||+|.|.+          ..+..|+..++.....     .....++.+|++|+..  +...+. .++|.      
T Consensus       230 gtl~l~~i~~l~~----------~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~--l~~~~~-~~~f~~~l~~~  296 (444)
T PRK15115        230 GTLFLDEIGDMPA----------PLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRD--LPKAMA-RGEFREDLYYR  296 (444)
T ss_pred             CEEEEEccccCCH----------HHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCC--HHHHHH-cCCccHHHHHh
Confidence            7999999999865          6678888888764321     1112357888888752  333332 22331      


Q ss_pred             -eEEEccCCCHHHHHH----HHHHhhcCC----CCC----CcccHHHHHHhccCCccccHHHHHHHHHHH
Q 007255          187 -AEVEVTVPTAEERFE----ILKLYTKKV----PLD----ANVDLEAIATSCNGYVGADLEALCREATMS  243 (611)
Q Consensus       187 -~~i~~~~p~~~~r~~----Il~~~~~~~----~~~----~~~~~~~la~~~~g~~~~dl~~l~~~a~~~  243 (611)
                       ..+.+..|...+|.+    ++++++...    ...    ...-+..+....=..+.+++++++..++..
T Consensus       297 l~~~~i~lPpLr~R~eDi~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~WpgNvreL~~~i~~~~~~  366 (444)
T PRK15115        297 LNVVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQLVNVIEQCVAL  366 (444)
T ss_pred             hceeeecCCChHhccccHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHh
Confidence             245566666666643    444444322    111    111133333322123456777777777643

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=98.17  E-value=8.8e-06  Score=86.09  Aligned_cols=165  Identities=16%  Similarity=0.195  Sum_probs=98.6

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHH----hcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccc-ccc--
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQ----KLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH-SVH--   90 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~----~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~-~~~--   90 (611)
                      +..|.|.+.+|.-|.-.+-     .+...    ...++-..|++++|.||||||-+.++++..+...+++-... +-.  
T Consensus       344 ~PsIyGhe~VK~GilL~Lf-----GGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR~vYtsGkaSSaAGL  418 (764)
T KOG0480|consen  344 FPSIYGHELVKAGILLSLF-----GGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPRSVYTSGKASSAAGL  418 (764)
T ss_pred             CccccchHHHHhhHHHHHh-----CCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCcceEecCcccccccc
Confidence            4567788888776654331     11111    22334457999999999999999999998876554432211 110  


Q ss_pred             ------cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCC------
Q 007255           91 ------KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKT------  158 (611)
Q Consensus        91 ------~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~------  158 (611)
                            +...|+.      .++ |- .......+|..|||+|.|--          .-+.++.+.|+...-+..      
T Consensus       419 TaaVvkD~esgdf------~iE-AG-ALmLADnGICCIDEFDKMd~----------~dqvAihEAMEQQtISIaKAGv~a  480 (764)
T KOG0480|consen  419 TAAVVKDEESGDF------TIE-AG-ALMLADNGICCIDEFDKMDV----------KDQVAIHEAMEQQTISIAKAGVVA  480 (764)
T ss_pred             eEEEEecCCCCce------eee-cC-cEEEccCceEEechhcccCh----------HhHHHHHHHHHhheehheecceEE
Confidence                  1111110      011 00 01123456999999999843          236778888876432221      


Q ss_pred             -CCCcEEEEEeecCcc-------------cccHHhhccCCcceE-EEccCCCHHHHHHHHHHhh
Q 007255          159 -SVPHVVVVASTNRVD-------------AIDPALRRSGRFDAE-VEVTVPTAEERFEILKLYT  207 (611)
Q Consensus       159 -~~~~v~ii~ttn~~~-------------~l~~~l~~~~Rf~~~-i~~~~p~~~~r~~Il~~~~  207 (611)
                       .+.+.-|+|++|+..             .+++++.+  ||+.. |-++.|++..=..|-++.+
T Consensus       481 TLnARtSIlAAANPv~GhYdR~ktl~eNi~msApimS--RFDL~FiLlD~~nE~~D~~ia~hIl  542 (764)
T KOG0480|consen  481 TLNARTSILAAANPVGGHYDRKKTLRENINMSAPIMS--RFDLFFILLDDCNEVVDYAIARHIL  542 (764)
T ss_pred             eecchhhhhhhcCCcCCccccccchhhhcCCCchhhh--hhcEEEEEecCCchHHHHHHHHHHH
Confidence             122345788888853             66899998  99854 4667787776666665554

>PRK06851 hypothetical protein; Provisional

Probab=98.17  E-value=3.4e-05  Score=79.27  Aligned_cols=34  Identities=29%  Similarity=0.325  Sum_probs=27.1

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecch
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGA  358 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~  358 (611)
                      +-++|.|+||||||++++.++.++   |..+....++
T Consensus       215 ~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~  251 (367)
T PRK06851        215 NRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCG  251 (367)
T ss_pred             eEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCC
Confidence            458999999999999999999877   5555554443

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=98.17  E-value=1.3e-05  Score=86.97  Aligned_cols=176  Identities=20%  Similarity=0.230  Sum_probs=100.0

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchHHHHHHHHH---------------HHHhcCCcE
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQ---------------RARLAAPSI  386 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~~~~~~~~~---------------~a~~~~p~i  386 (611)
                      ..++++|++||||+++|+++....   +.+|+.+++..+....      .-..+|.               ........+
T Consensus       167 ~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~~~------~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gt  240 (457)
T PRK11361        167 ASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESL------LESELFGHEKGAFTGAQTLRQGLFERANEGT  240 (457)
T ss_pred             cEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCHHH------HHHHhcCCCCCCCCCCCCCCCCceEECCCCE
Confidence            469999999999999999998765   5789999987763211      0011111               011123459


Q ss_pred             EEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--C-------CCCeEEEEecCCCc-------ccchhccCCC
Q 007255          387 IFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--Q-------AKGILVLAATNRPH-------AIDAALMRPG  450 (611)
Q Consensus       387 l~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--~-------~~~~~vI~~tn~~~-------~ld~al~r~g  450 (611)
                      |||||++.+.              ......|+..++...  .       ..++.+|+||+..-       .+.+.+..  
T Consensus       241 l~ld~i~~l~--------------~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~l~~~~~~g~~~~~l~~--  304 (457)
T PRK11361        241 LLLDEIGEMP--------------LVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGTFREDLFY--  304 (457)
T ss_pred             EEEechhhCC--------------HHHHHHHHHHHhcCcEEeCCCCceeeeceEEEEeCCCCHHHHHHcCCchHHHHH--
Confidence            9999999882              345677777775321  0       12478888888642       12222332  


Q ss_pred             CccceeecCCCCHHHHHH----HHHHHhcCC----CC----CCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccc
Q 007255          451 RFDLVLYVPPPDLEARHE----ILRVHTRNM----KV----GDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISA  518 (611)
Q Consensus       451 Rf~~~i~~~~p~~~~r~~----il~~~~~~~----~~----~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~  518 (611)
                      |+. .+.+..|...+|..    +++.++.++    ..    .++..+..|.....--+-+++++++..+...+-     .
T Consensus       305 ~l~-~~~i~~ppLreR~~di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNv~eL~~~~~~~~~~~~-----~  378 (457)
T PRK11361        305 RLN-VIHLILPPLRDRREDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWPGNIRELSNVIERAVVMNS-----G  378 (457)
T ss_pred             Hhc-cceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHcCCCCCcHHHHHHHHHHHHHhCC-----C
Confidence            332 34455566655542    333333221    11    123334555555543367888888887665432     2


Q ss_pred             ccccHHHHHH
Q 007255          519 TAVRNRHFQT  528 (611)
Q Consensus       519 ~~i~~~~~~~  528 (611)
                      ..|+..|+..
T Consensus       379 ~~i~~~~l~~  388 (457)
T PRK11361        379 PIIFSEDLPP  388 (457)
T ss_pred             CcccHHHChH
Confidence            2355555543

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.15  E-value=5.7e-05  Score=79.06  Aligned_cols=175  Identities=14%  Similarity=0.184  Sum_probs=93.1

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEeec-chh------hccc------cccchHHHHHHHHHHHH----------
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS-GAE------LYSM------YVGESEALLRNTFQRAR----------  380 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~-~~~------~~~~------~~g~~~~~~~~~~~~a~----------  380 (611)
                      .+-+||+||+|||||+.++.+|.++|..+++-+ +-.      +-..      +....-..+......+.          
T Consensus       110 ~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew~Npi~~~~~~~~h~~t~~~~~~~~s~L~~fesFler~~kyg~l~~~g~  189 (634)
T KOG1970|consen  110 SRILLLTGPSGCGKSTTVKVLSKELGYQLIEWSNPINLKEPENLHNETSFLMFPYQSQLAVFESFLLRATKYGSLQMSGD  189 (634)
T ss_pred             ceEEEEeCCCCCCchhHHHHHHHhhCceeeeecCCccccccccccccchhcccchhhHHHHHHHHHHHHHhhchhhhccc
Confidence            345889999999999999999999998877544 211      1110      11111112222222231          


Q ss_pred             --hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEec-CCCcccchhccCC------CC
Q 007255          381 --LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAAT-NRPHAIDAALMRP------GR  451 (611)
Q Consensus       381 --~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~t-n~~~~ld~al~r~------gR  451 (611)
                        ...+.+|+|||+-..+..         + ..+.+...|.++-...... +++|.|- ..++..++..+++      .|
T Consensus       190 ~~~~~~~liLveDLPn~~~~---------d-~~~~f~evL~~y~s~g~~P-lIf~iTd~~~~g~nnq~rlf~~d~q~~~r  258 (634)
T KOG1970|consen  190 DLRTDKKLILVEDLPNQFYR---------D-DSETFREVLRLYVSIGRCP-LIFIITDSLSNGNNNQDRLFPKDIQEEPR  258 (634)
T ss_pred             ccccCceEEEeeccchhhhh---------h-hHHHHHHHHHHHHhcCCCc-EEEEEeccccCCCcchhhhchhhhhhccC
Confidence              123558999999766533         1 1233333343332212222 3333332 2334333322221      25


Q ss_pred             ccceeecCCCCHHHHHHHHHHHhcCCCC-------CCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHh
Q 007255          452 FDLVLYVPPPDLEARHEILRVHTRNMKV-------GDDVDLRSIAEETELFTGAELEGLCREAGIVALRE  514 (611)
Q Consensus       452 f~~~i~~~~p~~~~r~~il~~~~~~~~~-------~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~  514 (611)
                      +. .|-|.+-...-.++-|+.++.....       .....++.++..    +++||+.++......+...
T Consensus       259 i~-~IsFNPIa~T~MKK~L~ric~~e~~~~s~~k~~~~~~v~~i~~~----s~GDIRsAInsLQlssskg  323 (634)
T KOG1970|consen  259 IS-NISFNPIAPTIMKKFLKRICRIEANKKSGIKVPDTAEVELICQG----SGGDIRSAINSLQLSSSKG  323 (634)
T ss_pred             cc-eEeecCCcHHHHHHHHHHHHHHhcccccCCcCchhHHHHHHHHh----cCccHHHHHhHhhhhcccC
Confidence            55 6777777777777777755433222       223334555554    4559999988877775443

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.14  E-value=4.2e-06  Score=84.70  Aligned_cols=71  Identities=25%  Similarity=0.409  Sum_probs=45.8

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccch-HHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGES-EKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~-~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      ..++++|+||+|||||+|+.++|+++   |..+..++..++........ ...+...++..      .+..+|+|||+..
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~lk~~~~~~~~~~~l~~l------~~~dlLiIDDiG~  228 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAV------KEAPVLMLDDIGA  228 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHhcCcHHHHHHHh------cCCCEEEEecCCC
Confidence            45799999999999999999999988   56666666665543221100 00122222222      2356999999964


Q ss_pred             c
Q 007255          128 L  128 (611)
Q Consensus       128 l  128 (611)
                      -
T Consensus       229 e  229 (306)
T PRK08939        229 E  229 (306)
T ss_pred             c
Confidence            3

>PRK15115 response regulator GlrR; Provisional

Probab=98.13  E-value=2.2e-05  Score=84.82  Aligned_cols=177  Identities=19%  Similarity=0.251  Sum_probs=103.6

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchHHHHHHHHHH---------------HHhcCCcE
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQR---------------ARLAAPSI  386 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---------------a~~~~p~i  386 (611)
                      ..++++|++|||||++|+++....   +.+|+.+++..+....      .-..+|..               ........
T Consensus       158 ~~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~~~------~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gt  231 (444)
T PRK15115        158 VSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQL------LESELFGHARGAFTGAVSNREGLFQAAEGGT  231 (444)
T ss_pred             CeEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCHHH------HHHHhcCCCcCCCCCCccCCCCcEEECCCCE
Confidence            358999999999999999998875   5789999987763211      11112211               11123459


Q ss_pred             EEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC---------CCCeEEEEecCCCcccchhccCCCCccc---
Q 007255          387 IFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ---------AKGILVLAATNRPHAIDAALMRPGRFDL---  454 (611)
Q Consensus       387 l~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~---------~~~~~vI~~tn~~~~ld~al~r~gRf~~---  454 (611)
                      |||||+|.+.              ......|+..++.-.-         ..++.+|+||+.+  ++..+.+ |+|..   
T Consensus       232 l~l~~i~~l~--------------~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~--l~~~~~~-~~f~~~l~  294 (444)
T PRK15115        232 LFLDEIGDMP--------------APLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRD--LPKAMAR-GEFREDLY  294 (444)
T ss_pred             EEEEccccCC--------------HHHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCC--HHHHHHc-CCccHHHH
Confidence            9999999882              4456777777753210         1257888888753  3333322 34421   


Q ss_pred             ----eeecCCCCHHHHHH----HHHHHhcC----CCC----CCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccc
Q 007255          455 ----VLYVPPPDLEARHE----ILRVHTRN----MKV----GDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISA  518 (611)
Q Consensus       455 ----~i~~~~p~~~~r~~----il~~~~~~----~~~----~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~  518 (611)
                          .+.+..|...+|.+    +++.+++.    ...    .++..+..|.....--+-++++++++.+...+-     .
T Consensus       295 ~~l~~~~i~lPpLr~R~eDi~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~WpgNvreL~~~i~~~~~~~~-----~  369 (444)
T PRK15115        295 YRLNVVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQLVNVIEQCVALTS-----S  369 (444)
T ss_pred             HhhceeeecCCChHhccccHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCC-----C
Confidence                34455566666642    33333322    111    234446677776643477888888887765432     2


Q ss_pred             ccccHHHHHHH
Q 007255          519 TAVRNRHFQTV  529 (611)
Q Consensus       519 ~~i~~~~~~~~  529 (611)
                      ..|+..++...
T Consensus       370 ~~i~~~~l~~~  380 (444)
T PRK15115        370 PVISDALVEQA  380 (444)
T ss_pred             CccChhhhhhh
Confidence            33555555433

>PF14516 AAA_35: AAA-like domain

Probab=98.11  E-value=0.00017  Score=74.26  Aligned_cols=170  Identities=20%  Similarity=0.163  Sum_probs=98.6

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccchH------------------------------
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESE------------------------------   98 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~~------------------------------   98 (611)
                      +...+.+.||..+|||++...+.+.+   +...+.++...+........+                              
T Consensus        30 ~G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~  109 (331)
T PF14516_consen   30 PGSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEISRQLKLDEKLDEYWDEEIGS  109 (331)
T ss_pred             CCCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHHHHcCCChhHHHHHHHhcCC
Confidence            45789999999999999999987665   667777777654332111111                              


Q ss_pred             -HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEe-ecCccccc
Q 007255           99 -KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS-TNRVDAID  176 (611)
Q Consensus        99 -~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t-tn~~~~l~  176 (611)
                       ......|++.. .....+|.||+|||+|.++...    .....+...|..+.+........ ..+.++.+ ++......
T Consensus       110 ~~~~~~~~~~~l-l~~~~~~lVL~iDEiD~l~~~~----~~~~dF~~~LR~~~~~~~~~~~~-~~L~li~~~~t~~~~~~  183 (331)
T PF14516_consen  110 KISCTEYFEEYL-LKQIDKPLVLFIDEIDRLFEYP----QIADDFFGLLRSWYEQRKNNPIW-QKLRLILAGSTEDYIIL  183 (331)
T ss_pred             hhhHHHHHHHHH-HhcCCCCEEEEEechhhhccCc----chHHHHHHHHHHHHHhcccCccc-ceEEEEEecCccccccc
Confidence             11122222211 1112478999999999997632    12234555555555543321111 12333332 22222222


Q ss_pred             HHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCcc
Q 007255          177 PALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVG  230 (611)
Q Consensus       177 ~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~  230 (611)
                      ..-.+|..+...+.++..+.++...+++.+-...  ... .++.+-..+.|...
T Consensus       184 ~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~--~~~-~~~~l~~~tgGhP~  234 (331)
T PF14516_consen  184 DINQSPFNIGQPIELPDFTPEEVQELAQRYGLEF--SQE-QLEQLMDWTGGHPY  234 (331)
T ss_pred             CCCCCCcccccceeCCCCCHHHHHHHHHhhhccC--CHH-HHHHHHHHHCCCHH
Confidence            2224555566789999999999999888764332  222 38888888888643

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=98.09  E-value=6.6e-06  Score=69.77  Aligned_cols=24  Identities=42%  Similarity=0.566  Sum_probs=21.3

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCC
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEA  350 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~  350 (611)
                      +.|+||||+|||++|+.+|..+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~   24 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLK   24 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHH
Confidence            579999999999999999988753

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.09  E-value=1.1e-05  Score=73.86  Aligned_cols=110  Identities=20%  Similarity=0.183  Sum_probs=60.5

Q ss_pred             cceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcc----------------------ccccc--hHHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS----------------------MYVGE--SEALLRNTFQRA  379 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~----------------------~~~g~--~~~~~~~~~~~a  379 (611)
                      ++++||||+|||+++..++...   +.+++.++......                      .+...  ...........+
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLLSKAERLR   81 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHHHHHHHHH
Confidence            6899999999999999998887   45555554432221                      01111  111222334555


Q ss_pred             HhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCc
Q 007255          380 RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH  440 (611)
Q Consensus       380 ~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~  440 (611)
                      ....|.+++|||+..+................+.+..+...+    ...++.+|++++.+.
T Consensus        82 ~~~~~~~lviDe~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~----~~~~~~vv~~~~~~~  138 (165)
T cd01120          82 ERGGDDLIILDELTRLVRALREIREGYPGELDEELRELLERA----RKGGVTVIFTLQVPS  138 (165)
T ss_pred             hCCCCEEEEEEcHHHHHHHHHHHHhcCChHHHHHHHHHHHHH----hcCCceEEEEEecCC
Confidence            667788999999998864321000011112223344444443    223555666666554

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>PHA00729 NTP-binding motif containing protein

Probab=98.09  E-value=9.2e-06  Score=77.37  Aligned_cols=27  Identities=26%  Similarity=0.431  Sum_probs=24.3

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAH   80 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~   80 (611)
                      .+++++|+||||||++|.++++.++..
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l~~~   44 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDVFWK   44 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            489999999999999999999998633

>PF05729 NACHT: NACHT domain

Probab=98.08  E-value=4.1e-05  Score=70.31  Aligned_cols=140  Identities=19%  Similarity=0.196  Sum_probs=71.6

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhC---------CcEEeecchhhcccc------------ccchHHHHHH-HHHHHHhcC
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAE---------ASFFSLSGAELYSMY------------VGESEALLRN-TFQRARLAA  383 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~---------~~~~~~~~~~~~~~~------------~g~~~~~~~~-~~~~a~~~~  383 (611)
                      -++++|+||+|||++++.++..+.         .-++.+...+....-            .......+.. .........
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   81 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNK   81 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCC
Confidence            378999999999999999998761         112333333322210            0001111111 112233445


Q ss_pred             CcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCc--ccchhccCCCCccceeecCCC
Q 007255          384 PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH--AIDAALMRPGRFDLVLYVPPP  461 (611)
Q Consensus       384 p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~--~ld~al~r~gRf~~~i~~~~p  461 (611)
                      +.+++||.+|.+......      .........+...+.. ....++-+|.|++...  .+...+..   . ..+.++..
T Consensus        82 ~~llilDglDE~~~~~~~------~~~~~~~~~l~~l~~~-~~~~~~~liit~r~~~~~~~~~~~~~---~-~~~~l~~~  150 (166)
T PF05729_consen   82 RVLLILDGLDELEEQDQS------QERQRLLDLLSQLLPQ-ALPPGVKLIITSRPRAFPDLRRRLKQ---A-QILELEPF  150 (166)
T ss_pred             ceEEEEechHhcccchhh------hHHHHHHHHHHHHhhh-ccCCCCeEEEEEcCChHHHHHHhcCC---C-cEEEECCC
Confidence            669999999998643211      0111222222233332 1123333443433222  22222222   1 47888888


Q ss_pred             CHHHHHHHHHHHhcC
Q 007255          462 DLEARHEILRVHTRN  476 (611)
Q Consensus       462 ~~~~r~~il~~~~~~  476 (611)
                      +.+++.++++.+++.
T Consensus       151 ~~~~~~~~~~~~f~~  165 (166)
T PF05729_consen  151 SEEDIKQYLRKYFSN  165 (166)
T ss_pred             CHHHHHHHHHHHhhc
Confidence            999999999877653

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=98.06  E-value=6.6e-05  Score=75.92  Aligned_cols=167  Identities=19%  Similarity=0.243  Sum_probs=87.6

Q ss_pred             HHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHH--hCCc---EEEEcccccc---------
Q 007255           25 RAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRE--CGAH---LTVISPHSVH---------   90 (611)
Q Consensus        25 ~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~--l~~~---~~~v~~~~~~---------   90 (611)
                      +..+++|.+.+...           ......+.++|++|+|||++|..+++.  ....   .+.++.+.-.         
T Consensus         2 e~~~~~l~~~L~~~-----------~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i   70 (287)
T PF00931_consen    2 EKEIEKLKDWLLDN-----------SNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQI   70 (287)
T ss_dssp             HHHHHHHHHHHHTT-----------TTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHH
T ss_pred             HHHHHHHHHHhhCC-----------CCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccc
Confidence            45667777666431           135578999999999999999999977  4322   2223322110         


Q ss_pred             -----cc-----cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCC
Q 007255           91 -----KA-----HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSV  160 (611)
Q Consensus        91 -----~~-----~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  160 (611)
                           ..     ....... ....+...    ...++++|++||++..            .....+...+....      
T Consensus        71 ~~~l~~~~~~~~~~~~~~~-~~~~l~~~----L~~~~~LlVlDdv~~~------------~~~~~l~~~~~~~~------  127 (287)
T PF00931_consen   71 LRQLGEPDSSISDPKDIEE-LQDQLREL----LKDKRCLLVLDDVWDE------------EDLEELREPLPSFS------  127 (287)
T ss_dssp             HHHHTCC-STSSCCSSHHH-HHHHHHHH----HCCTSEEEEEEEE-SH------------HHH-------HCHH------
T ss_pred             ccccccccccccccccccc-ccccchhh----hccccceeeeeeeccc------------cccccccccccccc------
Confidence                 00     0011111 22222221    2345899999998643            11222222222111      


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCC----CCCcccHHHHHHhccCCc
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP----LDANVDLEAIATSCNGYV  229 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~----~~~~~~~~~la~~~~g~~  229 (611)
                      .+..+|.||.... +-.....  . ...+.++..+.++-.+++........    .......+.++..|.|..
T Consensus       128 ~~~kilvTTR~~~-v~~~~~~--~-~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  196 (287)
T PF00931_consen  128 SGSKILVTTRDRS-VAGSLGG--T-DKVIELEPLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLP  196 (287)
T ss_dssp             SS-EEEEEESCGG-GGTTHHS--C-EEEEECSS--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-H
T ss_pred             ccccccccccccc-ccccccc--c-cccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            1245666666532 3222221  1 35799999999999999998865433    112234678888888753

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=98.06  E-value=0.00024  Score=67.84  Aligned_cols=177  Identities=20%  Similarity=0.214  Sum_probs=103.0

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCc---EEEEccccccccc---------ccchHHHHH--------HHHHHHHhhhh
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAH---LTVISPHSVHKAH---------VGESEKALR--------EAFSQASSHAL  113 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~---~~~v~~~~~~~~~---------~~~~~~~l~--------~~f~~~~~~~~  113 (611)
                      .-+.++|+-|||||++.|++...++..   .+.++...+....         .......++        .+.....   .
T Consensus        52 g~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~~---~  128 (269)
T COG3267          52 GILAVTGEVGSGKTVLRRALLASLNEDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVK---K  128 (269)
T ss_pred             ceEEEEecCCCchhHHHHHHHHhcCCCceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHHHH---h
Confidence            468899999999999999777766432   2344443322110         010001111        1111111   1


Q ss_pred             cCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccc-c---HHhhccCCcceEE
Q 007255          114 SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI-D---PALRRSGRFDAEV  189 (611)
Q Consensus       114 ~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l-~---~~l~~~~Rf~~~i  189 (611)
                      ..+|.++++||++.+...          ....+..+.+. ......+-.+++++-..--..+ -   ..+..  |+...|
T Consensus       129 g~r~v~l~vdEah~L~~~----------~le~Lrll~nl-~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~--R~~ir~  195 (269)
T COG3267         129 GKRPVVLMVDEAHDLNDS----------ALEALRLLTNL-EEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQ--RIDIRI  195 (269)
T ss_pred             CCCCeEEeehhHhhhChh----------HHHHHHHHHhh-cccccCceeeeecCCcccchhhchHHHHhhhh--eEEEEE
Confidence            245789999999988652          23333333322 2222233346666643321111 1   22333  787669


Q ss_pred             EccCCCHHHHHHHHHHhhcCCCCC----CcccHHHHHHhccCCccccHHHHHHHHHHHHhhh
Q 007255          190 EVTVPTAEERFEILKLYTKKVPLD----ANVDLEAIATSCNGYVGADLEALCREATMSAVKR  247 (611)
Q Consensus       190 ~~~~p~~~~r~~Il~~~~~~~~~~----~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r  247 (611)
                      ++++.+.++-..+++++++.....    .+.-+..+....+|+ ++-+.+++..|+..+..-
T Consensus       196 ~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~-P~lin~~~~~Al~~a~~a  256 (269)
T COG3267         196 ELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGI-PRLINNLATLALDAAYSA  256 (269)
T ss_pred             ecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccc-hHHHHHHHHHHHHHHHHc
Confidence            999999999999999988776433    233467777778884 666888888887666553

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=98.05  E-value=9.7e-05  Score=74.10  Aligned_cols=165  Identities=20%  Similarity=0.271  Sum_probs=99.2

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc--------
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH--------   90 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~--------   90 (611)
                      ..+.+.+.++..|...+-.     .     .-..|.++.++|-+|||||.+++.+.+.++.+.+.+++-+..        
T Consensus         6 ~~v~~Re~qi~~L~~Llg~-----~-----~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ecft~~~lle~   75 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGN-----N-----SCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVECFTYAILLEK   75 (438)
T ss_pred             cCccchHHHHHHHHHHhCC-----C-----CcccceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHhccHHHHHHH
Confidence            4567888889888887632     1     113567889999999999999999999999888887765321        


Q ss_pred             -------cccccchH----HHHHH---HHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC
Q 007255           91 -------KAHVGESE----KALRE---AFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS  156 (611)
Q Consensus        91 -------~~~~~~~~----~~l~~---~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~  156 (611)
                             ....|...    ..+.+   .|.+........+...|++|.+|.+..       .+..+...++.+-+-... 
T Consensus        76 IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD-------~~a~ll~~l~~L~el~~~-  147 (438)
T KOG2543|consen   76 ILNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRD-------MDAILLQCLFRLYELLNE-  147 (438)
T ss_pred             HHHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhc-------cchHHHHHHHHHHHHhCC-
Confidence                   11122111    22333   333322222223467899999998853       333556666655543322 


Q ss_pred             CCCCCcEEEEEeecCcccccHHhhccCCc-ceEEEccCCCHHHHHHHHHHhh
Q 007255          157 KTSVPHVVVVASTNRVDAIDPALRRSGRF-DAEVEVTVPTAEERFEILKLYT  207 (611)
Q Consensus       157 ~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf-~~~i~~~~p~~~~r~~Il~~~~  207 (611)
                          +.+.++.+......  .-..+-|.+ -.+++||.|+.++.+.|+..-.
T Consensus       148 ----~~i~iils~~~~e~--~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~  193 (438)
T KOG2543|consen  148 ----PTIVIILSAPSCEK--QYLINTGTLEIVVLHFPQYSVEETQVILSRDN  193 (438)
T ss_pred             ----CceEEEEeccccHH--HhhcccCCCCceEEecCCCCHHHHHHHHhcCC
Confidence                12344433332111  111111222 2578999999999999998643

>PLN03210 Resistant to P

Probab=98.05  E-value=0.0001  Score=88.64  Aligned_cols=180  Identities=18%  Similarity=0.210  Sum_probs=96.8

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcE---EEEccc---c-
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL---TVISPH---S-   88 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~---~~v~~~---~-   88 (611)
                      ..+++++|.++.++.+...+..           +....+-+-++|++|+||||+|+++++.+...+   +.++..   . 
T Consensus       181 ~~~~~~vG~~~~l~~l~~lL~l-----------~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~  249 (1153)
T PLN03210        181 NDFEDFVGIEDHIAKMSSLLHL-----------ESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKS  249 (1153)
T ss_pred             cccccccchHHHHHHHHHHHcc-----------ccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccc
Confidence            4567899999999999887632           123456789999999999999999988774432   111110   0 


Q ss_pred             --ccc-cc---ccch----HHHHHHHHHH---------HHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHH
Q 007255           89 --VHK-AH---VGES----EKALREAFSQ---------ASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (611)
Q Consensus        89 --~~~-~~---~~~~----~~~l~~~f~~---------~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~  149 (611)
                        ... ..   ....    ...+..++..         ........++.+|++||++..            .....+...
T Consensus       250 ~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~------------~~l~~L~~~  317 (1153)
T PLN03210        250 MEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQ------------DVLDALAGQ  317 (1153)
T ss_pred             hhhcccccccccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCH------------HHHHHHHhh
Confidence              000 00   0000    0011111100         001112346778999998632            222333322


Q ss_pred             HhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc---ccHHHHHHhcc
Q 007255          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN---VDLEAIATSCN  226 (611)
Q Consensus       150 l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~---~~~~~la~~~~  226 (611)
                      .+..    . . .-.||.||...     .+.+....+..+.++.|+.++..++|..+..+.....+   .-...++..+.
T Consensus       318 ~~~~----~-~-GsrIIiTTrd~-----~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~  386 (1153)
T PLN03210        318 TQWF----G-S-GSRIIVITKDK-----HFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAG  386 (1153)
T ss_pred             CccC----C-C-CcEEEEEeCcH-----HHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhC
Confidence            2211    1 1 12455556642     22222245568899999999999999877644322221   11344566677


Q ss_pred             CCc
Q 007255          227 GYV  229 (611)
Q Consensus       227 g~~  229 (611)
                      |..
T Consensus       387 GLP  389 (1153)
T PLN03210        387 NLP  389 (1153)
T ss_pred             CCc
Confidence            653

syringae 6; Provisional

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=98.04  E-value=4e-05  Score=65.57  Aligned_cols=53  Identities=26%  Similarity=0.248  Sum_probs=42.1

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      ..|.||.-+++.+..++..-+..+      .-+.|.-+-|+|+||||||++++.||+.+
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~------~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANP------NPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCC------CCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            468999999999999887654432      12345566699999999999999999986

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>TIGR02012 tigrfam_recA protein RecA

Probab=98.01  E-value=4.1e-05  Score=77.33  Aligned_cols=118  Identities=20%  Similarity=0.184  Sum_probs=71.0

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcc----------------ccccchHHHHHHHHHHHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS----------------MYVGESEALLRNTFQRAR  380 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~----------------~~~g~~~~~~~~~~~~a~  380 (611)
                      |++..+-++++||||||||+||..++.+.   +...+.++......                ......+..+..+...++
T Consensus        51 Glp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~  130 (321)
T TIGR02012        51 GLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVR  130 (321)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhh
Confidence            56767778999999999999988776554   55566565433211                112223444544545556


Q ss_pred             hcCCcEEEEcccccccccCCCCC---CCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecC
Q 007255          381 LAAPSIIFFDEADVVGAKRGGSS---STSITVGERLLSTLLTEMDGLEQAKGILVLAATN  437 (611)
Q Consensus       381 ~~~p~il~iDeid~l~~~~~~~~---~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn  437 (611)
                      ...+++|+||-+-.+.+...-.+   +.......+++++++..|.......++.+|+|..
T Consensus       131 ~~~~~lIVIDSv~al~~~~E~e~~~g~~~~~~~aR~m~~~lr~L~~~l~~~~~tvi~tNQ  190 (321)
T TIGR02012       131 SGAVDIIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGALSKSNTTAIFINQ  190 (321)
T ss_pred             ccCCcEEEEcchhhhccchhhcccccccchhHHHHHHHHHHHHHHHHHHhCCCEEEEEec
Confidence            67789999999999876422111   1111123355555555555444556677775543

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=98.01  E-value=7.7e-06  Score=84.46  Aligned_cols=105  Identities=22%  Similarity=0.322  Sum_probs=61.8

Q ss_pred             CCCCCCcceeCCCCCChHHHHHHHHHHhCCc-EEeecchhhcc-------ccccchHHHHHHHHHHHHhcCCcEEEEccc
Q 007255          321 ISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-FFSLSGAELYS-------MYVGESEALLRNTFQRARLAAPSIIFFDEA  392 (611)
Q Consensus       321 ~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-~~~~~~~~~~~-------~~~g~~~~~~~~~~~~a~~~~p~il~iDei  392 (611)
                      ..+++|+.||||+|+|||+|.-++...+... -..++--+++.       .+.|. ...+..+.+..... ..+|.|||+
T Consensus        59 ~~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~vh~~l~~~~~~-~~~l~~va~~l~~~-~~lLcfDEF  136 (362)
T PF03969_consen   59 PPPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLRGQ-DDPLPQVADELAKE-SRLLCFDEF  136 (362)
T ss_pred             CCCCceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHhCC-CccHHHHHHHHHhc-CCEEEEeee
Confidence            4578999999999999999999998877441 11111111111       11111 11223333333222 239999999


Q ss_pred             ccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCC-Cccc
Q 007255          393 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR-PHAI  442 (611)
Q Consensus       393 d~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~-~~~l  442 (611)
                      +.-           +-....++..|+..|    -..++++|+|+|+ |++|
T Consensus       137 ~V~-----------DiaDAmil~rLf~~l----~~~gvvlVaTSN~~P~~L  172 (362)
T PF03969_consen  137 QVT-----------DIADAMILKRLFEAL----FKRGVVLVATSNRPPEDL  172 (362)
T ss_pred             ecc-----------chhHHHHHHHHHHHH----HHCCCEEEecCCCChHHH
Confidence            743           122345667777666    3467888899997 4544

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=98.00  E-value=5.2e-06  Score=82.66  Aligned_cols=135  Identities=22%  Similarity=0.371  Sum_probs=73.0

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcE---EeecchhhccccccchHHHHHHHHHHH----H-------hcCCcEEEE
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASF---FSLSGAELYSMYVGESEALLRNTFQRA----R-------LAAPSIIFF  389 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~---~~~~~~~~~~~~~g~~~~~~~~~~~~a----~-------~~~p~il~i  389 (611)
                      .+++||+||+|||||++++.+-..+...-   ..++.+..      .+...++.+.+..    +       .....|+||
T Consensus        33 ~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~------Tts~~~q~~ie~~l~k~~~~~~gP~~~k~lv~fi  106 (272)
T PF12775_consen   33 GRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQ------TTSNQLQKIIESKLEKRRGRVYGPPGGKKLVLFI  106 (272)
T ss_dssp             TEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TT------HHHHHHHHCCCTTECECTTEEEEEESSSEEEEEE
T ss_pred             CCcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCC------CCHHHHHHHHhhcEEcCCCCCCCCCCCcEEEEEe
Confidence            45799999999999999998766553221   22222211      1112222222111    0       112349999


Q ss_pred             cccccccccCCCCCCCCcchhHHHHHHHHHHh-c--CCCCC--------CCeEEEEecCCCc---ccchhccCCCCccce
Q 007255          390 DEADVVGAKRGGSSSTSITVGERLLSTLLTEM-D--GLEQA--------KGILVLAATNRPH---AIDAALMRPGRFDLV  455 (611)
Q Consensus       390 Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l-~--~~~~~--------~~~~vI~~tn~~~---~ld~al~r~gRf~~~  455 (611)
                      ||++.-....         ....-.-+||+++ +  |....        .++.+|+|++.+.   .+++.++|  .|. +
T Consensus       107 DDlN~p~~d~---------ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is~R~~r--~f~-i  174 (272)
T PF12775_consen  107 DDLNMPQPDK---------YGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLR--HFN-I  174 (272)
T ss_dssp             ETTT-S---T---------TS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHT--TEE-E
T ss_pred             cccCCCCCCC---------CCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhh--heE-E
Confidence            9998653221         1111122444433 2  21111        2577888887543   47888887  676 8


Q ss_pred             eecCCCCHHHHHHHHHHHhcC
Q 007255          456 LYVPPPDLEARHEILRVHTRN  476 (611)
Q Consensus       456 i~~~~p~~~~r~~il~~~~~~  476 (611)
                      +.++.|+.++...|+...+..
T Consensus       175 ~~~~~p~~~sl~~If~~il~~  195 (272)
T PF12775_consen  175 LNIPYPSDESLNTIFSSILQS  195 (272)
T ss_dssp             EE----TCCHHHHHHHHHHHH
T ss_pred             EEecCCChHHHHHHHHHHHhh
Confidence            999999999999998866543

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=97.99  E-value=0.00051  Score=65.41  Aligned_cols=149  Identities=13%  Similarity=0.065  Sum_probs=101.5

Q ss_pred             CCCCCcceeCCCC-CChHHHHHHHHHHhCCc---------EEeecchhhcccc-ccchHHHHHHHHHHHHh----cCCcE
Q 007255          322 SPVRGALLHGPPG-CSKTTLAKAAAHAAEAS---------FFSLSGAELYSMY-VGESEALLRNTFQRARL----AAPSI  386 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G-~GKT~la~ala~~~~~~---------~~~~~~~~~~~~~-~g~~~~~~~~~~~~a~~----~~p~i  386 (611)
                      +-.+++||.|..+ +||..++.-++..+.+.         +..+.+..-..+. ..-.-..++.+.+.+..    ....|
T Consensus        13 kLshAYLfeG~n~~~~~~~~~~f~~~~l~~~~i~~~~HPD~~~I~pe~~~~~~~~~I~IdqIReL~~~l~~~p~~g~~KV   92 (263)
T PRK06581         13 KLYNSWLIEAENIEQALKDLEKFIYIKLFKNSIPLENNPDYHFIARETSATSNAKNISIEQIRKLQDFLSKTSAISGYKV   92 (263)
T ss_pred             cchheeeEeCCChhhHHHHHHHHHHHHHhccCcccCCCCCEEEEeccccccccCCcccHHHHHHHHHHHhhCcccCCcEE
Confidence            4457899999998 99999999988877432         2333221100000 00123455555554432    23459


Q ss_pred             EEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHH
Q 007255          387 IFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEAR  466 (611)
Q Consensus       387 l~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r  466 (611)
                      ++|+++|.+              +....|+||+.|+  +++.++++|..|+.++.+.|.+++  |+. .+.|+.|+...-
T Consensus        93 iII~~ae~m--------------t~~AANALLKtLE--EPP~~t~fILit~~~~~LLpTIrS--RCq-~i~~~~p~~~~~  153 (263)
T PRK06581         93 AIIYSAELM--------------NLNAANSCLKILE--DAPKNSYIFLITSRAASIISTIRS--RCF-KINVRSSILHAY  153 (263)
T ss_pred             EEEechHHh--------------CHHHHHHHHHhhc--CCCCCeEEEEEeCChhhCchhHhh--ceE-EEeCCCCCHHHH
Confidence            999999987              3567899999999  688899999999999999999998  987 888999988777


Q ss_pred             HHHHHHHhcCCCCCCcccHHHHHHh
Q 007255          467 HEILRVHTRNMKVGDDVDLRSIAEE  491 (611)
Q Consensus       467 ~~il~~~~~~~~~~~~~~~~~la~~  491 (611)
                      .+.+........  ++..++.+.+.
T Consensus       154 ~e~~~~~~~p~~--~~~~l~~i~~~  176 (263)
T PRK06581        154 NELYSQFIQPIA--DNKTLDFINRF  176 (263)
T ss_pred             HHHHHHhccccc--ccHHHHHHHHH
Confidence            777665544332  23334444444

>PLN03210 Resistant to P

Probab=97.99  E-value=0.00083  Score=80.98  Aligned_cols=176  Identities=20%  Similarity=0.250  Sum_probs=97.1

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE---Eeecch---h
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF---FSLSGA---E  359 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~---~~~~~~---~  359 (611)
                      ...+++++|.+...+.+...+..           .....+-+-++||+|+|||++|+++++.+...|   +.++..   .
T Consensus       180 ~~~~~~~vG~~~~l~~l~~lL~l-----------~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~  248 (1153)
T PLN03210        180 SNDFEDFVGIEDHIAKMSSLLHL-----------ESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISK  248 (1153)
T ss_pred             CcccccccchHHHHHHHHHHHcc-----------ccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeecccccc
Confidence            34577899999888888877653           223345678999999999999999988774332   111110   0


Q ss_pred             hcccccc----c-------hHHHHHHH-------------HHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHH
Q 007255          360 LYSMYVG----E-------SEALLRNT-------------FQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLS  415 (611)
Q Consensus       360 ~~~~~~g----~-------~~~~~~~~-------------~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~  415 (611)
                      ....+..    .       ....+..+             .+..-..++.+|++|+++..                ....
T Consensus       249 ~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~----------------~~l~  312 (1153)
T PLN03210        249 SMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQ----------------DVLD  312 (1153)
T ss_pred             chhhcccccccccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCH----------------HHHH
Confidence            0000000    0       00001111             11112245668999998632                2233


Q ss_pred             HHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccH----HHHHHh
Q 007255          416 TLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDL----RSIAEE  491 (611)
Q Consensus       416 ~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~----~~la~~  491 (611)
                      .+....+.+  ..+..||.||...+.+     +....+.++.++.|+.++..+++..+.-+.... ..++    ..+++.
T Consensus       313 ~L~~~~~~~--~~GsrIIiTTrd~~vl-----~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~-~~~~~~l~~~iv~~  384 (1153)
T PLN03210        313 ALAGQTQWF--GSGSRIIVITKDKHFL-----RAHGIDHIYEVCLPSNELALEMFCRSAFKKNSP-PDGFMELASEVALR  384 (1153)
T ss_pred             HHHhhCccC--CCCcEEEEEeCcHHHH-----HhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCC-cHHHHHHHHHHHHH
Confidence            443333322  1233455577755443     212456788999999999999998665332221 2222    346667


Q ss_pred             CCCCC
Q 007255          492 TELFT  496 (611)
Q Consensus       492 ~~g~s  496 (611)
                      +.|..
T Consensus       385 c~GLP  389 (1153)
T PLN03210        385 AGNLP  389 (1153)
T ss_pred             hCCCc
Confidence            77754

syringae 6; Provisional

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.98  E-value=1.3e-05  Score=67.88  Aligned_cols=24  Identities=33%  Similarity=0.848  Sum_probs=21.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhCC
Q 007255           56 LLLYGPPGTGKTSLVRAVVRECGA   79 (611)
Q Consensus        56 iLl~Gp~GtGKT~la~~la~~l~~   79 (611)
                      |.|+||||+|||++++.+++.+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~   24 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLK   24 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHH
Confidence            579999999999999999988753

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=97.97  E-value=7.9e-06  Score=89.56  Aligned_cols=173  Identities=21%  Similarity=0.203  Sum_probs=100.7

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHHhcC----CCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccc
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLG----LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH   93 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g----~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~   93 (611)
                      ...|.|.+++|+.|.-.+--     +.....+    ++-.-|+||+|.||||||.+.+.+++.+...++.-...+-   .
T Consensus       285 aPsIyG~e~VKkAilLqLfg-----Gv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aPr~vytsgkgss---~  356 (682)
T COG1241         285 APSIYGHEDVKKAILLQLFG-----GVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAPRGVYTSGKGSS---A  356 (682)
T ss_pred             cccccCcHHHHHHHHHHhcC-----CCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCCceEEEcccccc---c
Confidence            45788999988887544421     1111111    2334799999999999999999999887655443221110   0


Q ss_pred             ccchHHHHHHHH--H--HHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC-------CCCCc
Q 007255           94 VGESEKALREAF--S--QASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK-------TSVPH  162 (611)
Q Consensus        94 ~~~~~~~l~~~f--~--~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-------~~~~~  162 (611)
                      .|.+....++-.  +  --........++|..|||+|.|..          .....+...|+...-+.       +.+.+
T Consensus       357 ~GLTAav~rd~~tge~~LeaGALVlAD~Gv~cIDEfdKm~~----------~dr~aihEaMEQQtIsIaKAGI~atLnAR  426 (682)
T COG1241         357 AGLTAAVVRDKVTGEWVLEAGALVLADGGVCCIDEFDKMNE----------EDRVAIHEAMEQQTISIAKAGITATLNAR  426 (682)
T ss_pred             cCceeEEEEccCCCeEEEeCCEEEEecCCEEEEEeccCCCh----------HHHHHHHHHHHhcEeeecccceeeecchh
Confidence            111111111100  0  000011123477999999998844          33566777777632221       22345


Q ss_pred             EEEEEeecCcc-------------cccHHhhccCCcceEE-EccCCCHHHHHHHHHHhhcCC
Q 007255          163 VVVVASTNRVD-------------AIDPALRRSGRFDAEV-EVTVPTAEERFEILKLYTKKV  210 (611)
Q Consensus       163 v~ii~ttn~~~-------------~l~~~l~~~~Rf~~~i-~~~~p~~~~r~~Il~~~~~~~  210 (611)
                      +-++|++|+..             .+++.+.+  ||+..+ ..+.|+.+.=..+..+.+..+
T Consensus       427 csvLAAaNP~~Gryd~~~~~~enI~l~~~lLS--RFDLifvl~D~~d~~~D~~ia~hil~~h  486 (682)
T COG1241         427 CSVLAAANPKFGRYDPKKTVAENINLPAPLLS--RFDLIFVLKDDPDEEKDEEIAEHILDKH  486 (682)
T ss_pred             hhhhhhhCCCCCcCCCCCCHHHhcCCChhHHh--hCCeeEEecCCCCccchHHHHHHHHHHH
Confidence            56888888854             66788999  999654 445677766666666655433

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=97.95  E-value=3.2e-05  Score=83.47  Aligned_cols=164  Identities=22%  Similarity=0.247  Sum_probs=92.8

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchHHHHHHHHHH---------------HHhcCCc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQR---------------ARLAAPS  385 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---------------a~~~~p~  385 (611)
                      ...++++|++||||+++|+++....   +.+|+.++++.+.....      -..+|..               .....+.
T Consensus       162 ~~~vli~ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~~~~------~~~lfg~~~~~~~~~~~~~~g~~~~a~~g  235 (441)
T PRK10365        162 EATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNESLL------ESELFGHEKGAFTGADKRREGRFVEADGG  235 (441)
T ss_pred             CCeEEEEecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCHHHH------HHHhcCCCCCCcCCCCcCCCCceeECCCC
Confidence            4579999999999999999998665   57899999986532110      0111110               1123456


Q ss_pred             EEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC---------CCCeEEEEecCCCcccchhccCCCCccc--
Q 007255          386 IIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ---------AKGILVLAATNRPHAIDAALMRPGRFDL--  454 (611)
Q Consensus       386 il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~---------~~~~~vI~~tn~~~~ld~al~r~gRf~~--  454 (611)
                      +|||||||.+.              ......|+..++.-.-         .-++.+|++|+.+-.   ....+|+|..  
T Consensus       236 tl~ldei~~l~--------------~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~~~---~~~~~~~~~~~l  298 (441)
T PRK10365        236 TLFLDEIGDIS--------------PMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLA---AEVNAGRFRQDL  298 (441)
T ss_pred             EEEEeccccCC--------------HHHHHHHHHHHccCcEEeCCCCceeeeceEEEEeCCCCHH---HHHHcCCchHHH
Confidence            99999999883              3455677777653210         114667877766431   1112233421  


Q ss_pred             -----eeecCCCCHHHHH----HHHHHHhcCC----CC----CCcccHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 007255          455 -----VLYVPPPDLEARH----EILRVHTRNM----KV----GDDVDLRSIAEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       455 -----~i~~~~p~~~~r~----~il~~~~~~~----~~----~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~  510 (611)
                           .+.+..|...+|.    .+++.++.++    ..    .++..+..|.....--+-++++++++.+...
T Consensus       299 ~~~l~~~~i~~ppLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgN~reL~~~~~~~~~~  371 (441)
T PRK10365        299 YYRLNVVAIEVPSLRQRREDIPLLAGHFLQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVERAVVL  371 (441)
T ss_pred             HHHhccceecCCChhhcchhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCCHHHHHHHHHHHHHHh
Confidence                 3444455555443    3444443321    11    1233455566555322567777777766543

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=97.93  E-value=9.7e-05  Score=76.29  Aligned_cols=94  Identities=15%  Similarity=0.175  Sum_probs=54.6

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh----CCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEccccccccc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAK  398 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~  398 (611)
                      ...++++.||+|||||+++.+++...    |   -..+++++....       -...+.  .-...++|+|||+..+.- 
T Consensus       208 ~~~Nli~lGp~GTGKThla~~l~~~~a~~sG---~f~T~a~Lf~~L-------~~~~lg--~v~~~DlLI~DEvgylp~-  274 (449)
T TIGR02688       208 PNYNLIELGPKGTGKSYIYNNLSPYVILISG---GTITVAKLFYNI-------STRQIG--LVGRWDVVAFDEVATLKF-  274 (449)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHhHHHHHHcC---CcCcHHHHHHHH-------HHHHHh--hhccCCEEEEEcCCCCcC-
Confidence            34689999999999999999988762    3   222333332211       001111  124467999999977521 


Q ss_pred             CCCCCCCCcchhHHHHHHHHHHhcCCC---------CCCCeEEEEecCC
Q 007255          399 RGGSSSTSITVGERLLSTLLTEMDGLE---------QAKGILVLAATNR  438 (611)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~~~vI~~tn~  438 (611)
                               ...+.++..|...|+.-.         ....++++|-+|.
T Consensus       275 ---------~~~~~~v~imK~yMesg~fsRG~~~~~a~as~vfvGNi~~  314 (449)
T TIGR02688       275 ---------AKPKELIGILKNYMESGSFTRGDETKSSDASFVFLGNVPL  314 (449)
T ss_pred             ---------CchHHHHHHHHHHHHhCceeccceeeeeeeEEEEEcccCC
Confidence                     122455666666665321         2234666776654

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.92  E-value=2.3e-05  Score=73.49  Aligned_cols=58  Identities=34%  Similarity=0.514  Sum_probs=36.2

Q ss_pred             cCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---EEEEcccc
Q 007255           21 IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---LTVISPHS   88 (611)
Q Consensus        21 i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---~~~v~~~~   88 (611)
                      ++|.++..++|...+.. .         ....+..++++|++|+|||++++.++..+...   ++.+++..
T Consensus         2 fvgR~~e~~~l~~~l~~-~---------~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~~~   62 (185)
T PF13191_consen    2 FVGREEEIERLRDLLDA-A---------QSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVISINCDD   62 (185)
T ss_dssp             -TT-HHHHHHHHHTTGG-T---------SS-----EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEEET
T ss_pred             CCCHHHHHHHHHHHHHH-H---------HcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEEec
Confidence            58999999999887741 1         12345899999999999999999987766433   55554443

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.90  E-value=6.4e-05  Score=76.00  Aligned_cols=118  Identities=20%  Similarity=0.185  Sum_probs=69.2

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcc----------------ccccchHHHHHHHHHHHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS----------------MYVGESEALLRNTFQRAR  380 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~----------------~~~g~~~~~~~~~~~~a~  380 (611)
                      |++..+-+.++||||||||++|..++.+.   +...+.++...-..                ......+..+..+-..++
T Consensus        51 Glp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~  130 (325)
T cd00983          51 GYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVR  130 (325)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHh
Confidence            56666678899999999999999877554   56666665533111                112223444444444456


Q ss_pred             hcCCcEEEEcccccccccCCCCC---CCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecC
Q 007255          381 LAAPSIIFFDEADVVGAKRGGSS---STSITVGERLLSTLLTEMDGLEQAKGILVLAATN  437 (611)
Q Consensus       381 ~~~p~il~iDeid~l~~~~~~~~---~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn  437 (611)
                      ...+++|+||-+-.+++.....+   +.......+.+.+.+..|-......++.+|.+..
T Consensus       131 s~~~~lIVIDSvaal~~~~E~~~~~~~~~~~~qaR~l~~~Lr~L~~~~~k~~~~vI~tNQ  190 (325)
T cd00983         131 SGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSINKSNTTVIFINQ  190 (325)
T ss_pred             ccCCCEEEEcchHhhcccccccccccccchHHHHHHHHHHHHHHHHHHHhCCCEEEEEEc
Confidence            67789999999999886422111   1111122344455555444444455666665543

RecA couples ATP hydrolysis to DNA strand exchange.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	611
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		1e-114
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		2e-46
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		1e-114
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		3e-46
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		7e-61
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		1e-46
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		7e-61
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		1e-46
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		8e-61
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		2e-46
3cf0_A	301	Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH		2e-54
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		9e-52
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		2e-46
3h4m_A	285	Aaa Atpase Domain Of The Proteasome- Activating Nuc		6e-50
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		5e-46
2x8a_A	274	Human Nuclear Valosin Containing Protein Like (Nvl)		9e-46
3kds_E	465	Apo-ftsh Crystal Structure Length = 465		4e-43
2ce7_A	476	Edta Treated Length = 476		4e-43
4b4t_H	467	Near-Atomic Resolution Structural Model Of The Yeas		2e-42
4b4t_M	434	Near-Atomic Resolution Structural Model Of The Yeas		2e-40
1lv7_A	257	Crystal Structure Of The Aaa Domain Of Ftsh Length		6e-39
4b4t_I	437	Near-Atomic Resolution Structural Model Of The Yeas		7e-39
4b4t_L	437	Near-Atomic Resolution Structural Model Of The Yeas		3e-38
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		6e-38
1iy2_A	278	Crystal Structure Of The Ftsh Atpase Domain From Th		3e-37
1ixz_A	254	Crystal Structure Of The Ftsh Atpase Domain From Th		5e-37
2dhr_A	499	Whole Cytosolic Region Of Atp-Dependent Metalloprot		5e-37
4eiw_A	508	Whole Cytosolic Region Of Atp-Dependent Metalloprot		7e-37
2r62_A	268	Crystal Structure Of Helicobacter Pylori Atp Depend		3e-36
2qz4_A	262	Human Paraplegin, Aaa Domain In Complex With Adp Le		8e-34
2rko_A	331	Crystal Structure Of The Vps4p-Dimer Length = 331		7e-31
2qp9_X	355	Crystal Structure Of S.Cerevisiae Vps4 Length = 355		3e-30
3eih_A	340	Crystal Structure Of S.Cerevisiae Vps4 In The Prese		6e-30
3eie_A	322	Crystal Structure Of S.Cerevisiae Vps4 In The So4-B		1e-29
2zam_A	444	Crystal Structure Of Mouse Skd1VPS4B APO-Form Lengt		2e-29
1xwi_A	322	Crystal Structure Of Vps4b Length = 322		4e-29
3d8b_A	357	Crystal Structure Of Human Fidgetin-Like Protein 1		4e-27
3vfd_A	389	Human Spastin Aaa Domain Length = 389		4e-23
3b9p_A	297	Spastin Length = 297		5e-23
3kw6_A	78	Crystal Structure Of A Domain Of 26s Proteasome Reg		3e-08
2krk_A	86	Solution Nmr Structure Of 26s Protease Regulatory S		1e-07
3pvs_A	447	Structure And Biochemical Activities Of Escherichia		1e-05
4a3v_B	95	Yeast Regulatory Particle Proteasome Assembly Chape		2e-05
3t15_A	293	Structure Of Green-Type Rubisco Activase From Tobac		7e-05
1ofh_A	310	Asymmetric Complex Between Hslv And I-domain Delete		5e-04
1hqc_A	324	Structure Of Ruvb From Thermus Thermophilus Hb8 Len		9e-04
1ixs_B	318	Structure Of Ruvb Complexed With Ruva Domain Iii Le		9e-04

>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Length = 806

Iteration: 1
 Score =  409 bits (1050), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 211/501 (42%), Positives = 305/501 (60%), Gaps = 18/501 (3%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           IGG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E GA 
Sbjct: 206 IGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF 265
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQD 139
             +I+   +     GESE  LR+AF +A  +A    P+++FIDE+DA+ P+R+    E +
Sbjct: 266 FFLINGPEIMSKLAGESESNLRKAFEEAEKNA----PAIIFIDELDAIAPKREKTHGEVE 321
Query: 140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
            RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD            R
Sbjct: 322 RRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 377
Query: 200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA-------- 251
            EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D         
Sbjct: 378 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI 437
Query: 252 -NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPI 310
             E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGGL D+K++LQ+ V++P+
Sbjct: 438 DAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYPV 497
Query: 311 KHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEA 370
           +H   F + G++P +G L +GPPGC                     G EL +M+ GESEA
Sbjct: 498 EHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEA 557
Query: 371 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGI 430
            +R  F +AR AAP ++FFDE D +   RGG+        +R+++ +LTEMDG+   K +
Sbjct: 558 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNV 617
Query: 431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAE 490
            ++ ATNRP  ID A++RPGR D ++Y+P PD ++R  IL+ + R   V  DVDL  +A+
Sbjct: 618 FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAK 677
Query: 491 ETELFTGAELEGLCREAGIVA 511
            T  F+GA+L  +C+ A  +A
Sbjct: 678 MTNGFSGADLTEICQRACKLA 698

>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Length = 806

Iteration: 1
 Score =  184 bits (466), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 98/229 (42%), Positives = 134/229 (58%), Gaps = 3/229 (1%)
Query: 286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXX 345
           +V ++DIGG R    ++++ VE P++H   F  +G+ P RG LL+GPPG           
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA 259
Query: 346 XXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST 405
                      G E+ S   GESE+ LR  F+ A   AP+IIF DE D +  KR     T
Sbjct: 260 NETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR---EKT 316
Query: 406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEA 465
              V  R++S LLT MDGL+Q   ++V+AATNRP++ID AL R GRFD  + +  PD   
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 466 RHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           R EIL++HT+NMK+ DDVDL  +A ET    GA+L  LC EA + A+R+
Sbjct: 377 RLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRK 425

>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A Length = 816

Iteration: 1
 Score =  408 bits (1048), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 210/501 (41%), Positives = 305/501 (60%), Gaps = 18/501 (3%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           +GG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E GA 
Sbjct: 206 VGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF 265
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQD 139
             +I+   +     GESE  LR+AF +A  +A    P+++FIDE+DA+ P+R+    E +
Sbjct: 266 FFLINGPEIMSKLAGESESNLRKAFEEAEKNA----PAIIFIDELDAIAPKREKTHGEVE 321
Query: 140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
            RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD            R
Sbjct: 322 RRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 377
Query: 200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA-------- 251
            EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D         
Sbjct: 378 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI 437
Query: 252 -NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPI 310
             E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGGL D+K++LQ+ V++P+
Sbjct: 438 DAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYPV 497
Query: 311 KHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEA 370
           +H   F + G++P +G L +GPPGC                     G EL +M+ GESEA
Sbjct: 498 EHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEA 557
Query: 371 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGI 430
            +R  F +AR AAP ++FFDE D +   RGG+        +R+++ +LTEMDG+   K +
Sbjct: 558 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNV 617
Query: 431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAE 490
            ++ ATNRP  ID A++RPGR D ++Y+P PD ++R  IL+ + R   V  DVDL  +A+
Sbjct: 618 FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAK 677
Query: 491 ETELFTGAELEGLCREAGIVA 511
            T  F+GA+L  +C+ A  +A
Sbjct: 678 MTNGFSGADLTEICQRACKLA 698

>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A Length = 816

Iteration: 1
 Score =  183 bits (464), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 97/229 (42%), Positives = 134/229 (58%), Gaps = 3/229 (1%)
Query: 286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXX 345
           +V ++D+GG R    ++++ VE P++H   F  +G+ P RG LL+GPPG           
Sbjct: 200 EVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA 259
Query: 346 XXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST 405
                      G E+ S   GESE+ LR  F+ A   AP+IIF DE D +  KR     T
Sbjct: 260 NETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR---EKT 316
Query: 406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEA 465
              V  R++S LLT MDGL+Q   ++V+AATNRP++ID AL R GRFD  + +  PD   
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 466 RHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           R EIL++HT+NMK+ DDVDL  +A ET    GA+L  LC EA + A+R+
Sbjct: 377 RLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRK 425

>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  231 bits (590), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 126/284 (44%), Positives = 174/284 (61%), Gaps = 18/284 (6%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           IGG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E GA 
Sbjct: 206 IGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF 265
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQD 139
             +I+   +     GESE  LR+AF +A  +A    P+++FIDE+DA+ P+R+    E +
Sbjct: 266 FFLINGPEIMSKLAGESESNLRKAFEEAEKNA----PAIIFIDELDAIAPKREKTHGEVE 321
Query: 140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
            RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD            R
Sbjct: 322 RRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 377
Query: 200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA-------- 251
            EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D         
Sbjct: 378 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI 437
Query: 252 -NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGG 294
             E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGG
Sbjct: 438 DAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGG 481

>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  184 bits (467), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 98/229 (42%), Positives = 134/229 (58%), Gaps = 3/229 (1%)
Query: 286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXX 345
           +V ++DIGG R    ++++ VE P++H   F  +G+ P RG LL+GPPG           
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA 259
Query: 346 XXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST 405
                      G E+ S   GESE+ LR  F+ A   AP+IIF DE D +  KR     T
Sbjct: 260 NETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR---EKT 316
Query: 406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEA 465
              V  R++S LLT MDGL+Q   ++V+AATNRP++ID AL R GRFD  + +  PD   
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 466 RHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           R EIL++HT+NMK+ DDVDL  +A ET    GA+L  LC EA + A+R+
Sbjct: 377 RLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRK 425

>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  231 bits (590), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 126/284 (44%), Positives = 174/284 (61%), Gaps = 18/284 (6%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           IGG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E GA 
Sbjct: 206 IGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF 265
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQD 139
             +I+   +     GESE  LR+AF +A  +A    P+++FIDE+DA+ P+R+    E +
Sbjct: 266 FFLINGPEIMSKLAGESESNLRKAFEEAEKNA----PAIIFIDELDAIAPKREKTHGEVE 321
Query: 140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
            RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD            R
Sbjct: 322 RRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 377
Query: 200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA-------- 251
            EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D         
Sbjct: 378 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI 437
Query: 252 -NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGG 294
             E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGG
Sbjct: 438 DAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGG 481

>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  184 bits (466), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 98/229 (42%), Positives = 134/229 (58%), Gaps = 3/229 (1%)
Query: 286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXX 345
           +V ++DIGG R    ++++ VE P++H   F  +G+ P RG LL+GPPG           
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA 259
Query: 346 XXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST 405
                      G E+ S   GESE+ LR  F+ A   AP+IIF DE D +  KR     T
Sbjct: 260 NETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR---EKT 316
Query: 406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEA 465
              V  R++S LLT MDGL+Q   ++V+AATNRP++ID AL R GRFD  + +  PD   
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 466 RHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           R EIL++HT+NMK+ DDVDL  +A ET    GA+L  LC EA + A+R+
Sbjct: 377 RLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRK 425

>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  231 bits (590), Expect = 8e-61,   Method: Compositional matrix adjust.
 Identities = 126/284 (44%), Positives = 174/284 (61%), Gaps = 18/284 (6%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           IGG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E GA 
Sbjct: 206 IGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF 265
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQD 139
             +I+   +     GESE  LR+AF +A  +A    P+++FIDE+DA+ P+R+    E +
Sbjct: 266 FFLINGPEIMSKLAGESESNLRKAFEEAEKNA----PAIIFIDELDAIAPKREKTHGEVE 321
Query: 140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
            RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD            R
Sbjct: 322 RRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 377
Query: 200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA-------- 251
            EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D         
Sbjct: 378 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI 437
Query: 252 -NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGG 294
             E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGG
Sbjct: 438 DAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGG 481

>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  184 bits (466), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 98/229 (42%), Positives = 134/229 (58%), Gaps = 3/229 (1%)
Query: 286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXX 345
           +V ++DIGG R    ++++ VE P++H   F  +G+ P RG LL+GPPG           
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA 259
Query: 346 XXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST 405
                      G E+ S   GESE+ LR  F+ A   AP+IIF DE D +  KR     T
Sbjct: 260 NETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR---EKT 316
Query: 406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEA 465
              V  R++S LLT MDGL+Q   ++V+AATNRP++ID AL R GRFD  + +  PD   
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 466 RHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           R EIL++HT+NMK+ DDVDL  +A ET    GA+L  LC EA + A+R+
Sbjct: 377 RLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRK 425

>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP Length = 301

Iteration: 1
 Score =  210 bits (535), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 97/234 (41%), Positives = 145/234 (61%)
Query: 278 RGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXX 337
           R   VE+P+VTWEDIGGL D+K++LQ+ V++P++H   F + G++P +G L +GPPGC  
Sbjct: 3   RETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGK 62
Query: 338 XXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA 397
                              G EL +M+ GESEA +R  F +AR AAP ++FFDE D +  
Sbjct: 63  TLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAK 122
Query: 398 KRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLY 457
            RGG+        +R+++ +LTEMDG+   K + ++ ATNRP  ID A++RPGR D ++Y
Sbjct: 123 ARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIY 182
Query: 458 VPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVA 511
           +P PD ++R  IL+ + R   V  DVDL  +A+ T  F+GA+L  +C+ A  +A
Sbjct: 183 IPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLA 236

>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain Of Membrane Fusion Atpase P97 Length = 458

Iteration: 1
 Score =  201 bits (511), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 111/260 (42%), Positives = 158/260 (60%), Gaps = 18/260 (6%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           +GG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E GA 
Sbjct: 206 VGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF 265
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQD 139
             +I+   +     GESE  LR+AF +A  +A    P+++FIDE+DA+ P+R+    E +
Sbjct: 266 FFLINGPEIMSKLAGESESNLRKAFEEAEKNA----PAIIFIDELDAIAPKREKTHGEVE 321
Query: 140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
            RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD            R
Sbjct: 322 RRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 377
Query: 200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA-------- 251
            EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D         
Sbjct: 378 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI 437
Query: 252 -NECAGVLSVTMEDWRHARS 270
             E    L+VTM+D+R A S
Sbjct: 438 DAEVMNSLAVTMDDFRWALS 457

>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain Of Membrane Fusion Atpase P97 Length = 458

Iteration: 1
 Score =  183 bits (465), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 97/229 (42%), Positives = 134/229 (58%), Gaps = 3/229 (1%)
Query: 286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXX 345
           +V ++D+GG R    ++++ VE P++H   F  +G+ P RG LL+GPPG           
Sbjct: 200 EVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA 259
Query: 346 XXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST 405
                      G E+ S   GESE+ LR  F+ A   AP+IIF DE D +  KR     T
Sbjct: 260 NETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR---EKT 316
Query: 406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEA 465
              V  R++S LLT MDGL+Q   ++V+AATNRP++ID AL R GRFD  + +  PD   
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 466 RHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           R EIL++HT+NMK+ DDVDL  +A ET    GA+L  LC EA + A+R+
Sbjct: 377 RLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRK 425

>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating Nucleotidase Length = 285

Iteration: 1
 Score =  195 bits (496), Expect = 6e-50,   Method: Compositional matrix adjust.
 Identities = 96/232 (41%), Positives = 140/232 (60%)
Query: 283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXX 342
           E P V +EDIGGL    +++++ VE P+KH   F ++GI P +G LL+GPPG        
Sbjct: 10  ERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAK 69
Query: 343 XXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGS 402
                         G+EL   ++GE  +L+++ F+ A+  APSIIF DE D + AKR  +
Sbjct: 70  AVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDA 129
Query: 403 SSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPD 462
            +      +R L  LL EMDG +    + ++ ATNRP  +D A++RPGRFD ++ VP PD
Sbjct: 130 LTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPD 189
Query: 463 LEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
            + R EIL++HTR M + +DV+L  IA+ TE   GAEL+ +C EAG+ A+RE
Sbjct: 190 EKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRE 241

>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 405

Iteration: 1
 Score =  182 bits (462), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 91/241 (37%), Positives = 139/241 (57%)
Query: 274 PSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPP 333
           P ++  +  ++P  T++ +GGL    K++++ +E P+KH   F  LGI+  +G +L+GPP
Sbjct: 132 PLVSLMMVEKVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPP 191
Query: 334 GCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEAD 393
           G                      GAEL   Y+GE   ++R  F  AR  APSIIF DE D
Sbjct: 192 GTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEID 251
Query: 394 VVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFD 453
            +G+ R   S    +  +R +  LL ++DG E +K I ++ ATNR   +D AL+RPGR D
Sbjct: 252 SIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRID 311
Query: 454 LVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALR 513
             +  PPP + AR EILR+H+R M +   ++LR +AE+    +GA+++G+C EAG+ ALR
Sbjct: 312 RKIEFPPPSVAARAEILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCTEAGMYALR 371
Query: 514 E 514
           E
Sbjct: 372 E 372

>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C- Terminal Aaa-Atpase Domain Length = 274

Iteration: 1
 Score =  181 bits (459), Expect = 9e-46,   Method: Compositional matrix adjust.
 Identities = 103/277 (37%), Positives = 155/277 (55%), Gaps = 21/277 (7%)
Query: 281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXX 340
           ++ +P VTW DIG L D++++L  A+  P+++   F  LG+    G LL GPPGC     
Sbjct: 1   SMTVPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLL 60
Query: 341 XXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRG 400
                           G EL +MYVGESE  +R  FQRA+ +AP +IFFDE D +  +R 
Sbjct: 61  AKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRR- 119
Query: 401 GSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYV-- 458
             S        R+++ LLTEMDGLE  + + ++AATNRP  ID A++RPGR D  L+V  
Sbjct: 120 --SDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGL 177
Query: 459 PPPDLEARHEILRVHTRN---MKVGDDVDLRSIAEE--TELFTGAELEGLCREAGIVALR 513
           PPP    R  IL+  T+N     +  DV+L +IA +   + +TGA+L  L REA I ALR
Sbjct: 178 PPP--ADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALR 235
Query: 514 EDIS---------ATAVRNRHFQTVKDSLKPALTKEE 541
           ++++            V ++HF+     ++ +++K++
Sbjct: 236 QEMARQKSGNEKGELKVSHKHFEEAFKKVRSSISKKD 272

>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure Length = 465

Iteration: 1
 Score =  172 bits (437), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 91/229 (39%), Positives = 134/229 (58%), Gaps = 1/229 (0%)
Query: 286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXX 345
           +VT++D+GG  +  ++L++ VE+ +K  + F+R+G    +G LL GPPG           
Sbjct: 12  RVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVA 70
Query: 346 XXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST 405
                      G++   ++VG   A +R+ F +A+  AP I+F DE D VG  RG     
Sbjct: 71  GEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGG 130
Query: 406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEA 465
                E+ L+ LL EMDG +  +GI+V+AATNRP  +D AL+RPGRFD  + V PPD+  
Sbjct: 131 GHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLG 190
Query: 466 RHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           R +IL +HTRN  + +DV+L  IA+ T  F GA+LE L  EA ++A RE
Sbjct: 191 RKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAARE 239

>pdb|2CE7|A Chain A, Edta Treated Length = 476

Iteration: 1
 Score =  172 bits (436), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 91/229 (39%), Positives = 134/229 (58%), Gaps = 1/229 (0%)
Query: 286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXX 345
           +VT++D+GG  +  ++L++ VE+ +K  + F+R+G    +G LL GPPG           
Sbjct: 12  RVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVA 70
Query: 346 XXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST 405
                      G++   ++VG   A +R+ F +A+  AP I+F DE D VG  RG     
Sbjct: 71  GEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGG 130
Query: 406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEA 465
                E+ L+ LL EMDG +  +GI+V+AATNRP  +D AL+RPGRFD  + V PPD+  
Sbjct: 131 GHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLG 190
Query: 466 RHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           R +IL +HTRN  + +DV+L  IA+ T  F GA+LE L  EA ++A RE
Sbjct: 191 RKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAARE 239

>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 467

Iteration: 1
 Score =  170 bits (430), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 97/263 (36%), Positives = 134/263 (50%), Gaps = 8/263 (3%)
Query: 272 VGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHG 331
           + PS+T     E P VT+ D+GG +D  +KL++ VE P+     F+ LGI P +G LL+G
Sbjct: 191 IDPSVTMMTVEEKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYG 250
Query: 332 PPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDE 391
           PPG                      G+EL   YVGE   ++R  F+ AR     IIFFDE
Sbjct: 251 PPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDE 310
Query: 392 ADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGR 451
            D VG  R    +      +R +  L+T++DG +    I V+ ATNRP+ +D AL+RPGR
Sbjct: 311 IDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGR 370
Query: 452 FDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVA 511
            D  +    PDLE R  I R+H+++M V   +    I+      TGAEL  +C EAG+ A
Sbjct: 371 IDRKVEFSLPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFA 430
Query: 512 LREDISATAVRNRHFQTVKDSLK 534
           +R          R   T KD LK
Sbjct: 431 IRA--------RRKVATEKDFLK 445

>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 434

Iteration: 1
 Score =  164 bits (414), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 85/244 (34%), Positives = 133/244 (54%), Gaps = 2/244 (0%)
Query: 283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXX 342
           E P  T+ D+GGL    ++L +A+  P+K +  F  +GI   +GAL++GPPG        
Sbjct: 174 EKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLAR 233
Query: 343 XXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGS 402
                           +L  MY+GE   L+R+ F  A+  AP+IIF DE D +G KR  S
Sbjct: 234 ACAAQTNATFLKLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDS 293
Query: 403 SSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPD 462
             +     +R +  LL ++DG      + VLAATNR   +D AL+R GR D  +  P P 
Sbjct: 294 EKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPS 353
Query: 463 LEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVR 522
            ++R +IL++H+R M   DD++ + +A  T+ F GA+L+ +  EAG++ALR     ++V+
Sbjct: 354 EDSRAQILQIHSRKMTTDDDINWQELARSTDEFNGAQLKAVTVEAGMIALRN--GQSSVK 411
Query: 523 NRHF 526
           +  F
Sbjct: 412 HEDF 415

>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh Length = 257

Iteration: 1
 Score =  159 bits (401), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 90/252 (35%), Positives = 135/252 (53%), Gaps = 3/252 (1%)
Query: 286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXX 345
           K T+ D+ G  + K+++ + VE+ ++  + F +LG    +G L+ GPPG           
Sbjct: 8   KTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIA 66
Query: 346 XXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST 405
                      G++   M+VG   + +R+ F++A+ AAP IIF DE D VG +RG     
Sbjct: 67  GEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGG 126
Query: 406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEA 465
                E+ L+ +L EMDG E  +GI+V+AATNRP  +D AL+RPGRFD  + V  PD+  
Sbjct: 127 GHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRG 186
Query: 466 RHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRH 525
           R +IL+VH R + +  D+D   IA  T  F+GA+L  L  EA + A R +     V    
Sbjct: 187 REQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGN--KRVVSMVE 244
Query: 526 FQTVKDSLKPAL 537
           F+  KD +   L
Sbjct: 245 FEKAKDKIMMGL 256

>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score =  158 bits (400), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 78/230 (33%), Positives = 126/230 (54%)
Query: 285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXX 344
           P  ++ DIGGL    ++++++VE P+ H   +  +GI P +G +L+G PG          
Sbjct: 177 PTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAV 236
Query: 345 XXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSS 404
                       G+EL   Y+G+   L R  F+ A   APSI+F DE D +G KR  S+S
Sbjct: 237 ANQTSATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNS 296
Query: 405 TSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLE 464
                 +R +  LL ++DG +    + V+ ATN+   +D AL+RPGR D  +    PDL 
Sbjct: 297 GGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLS 356
Query: 465 ARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
            + +IL +HT  M + +DV+L ++    +  +GA+++ +C EAG++ALRE
Sbjct: 357 TKKKILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAMCTEAGLLALRE 406

>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score =  156 bits (395), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 78/242 (32%), Positives = 128/242 (52%)
Query: 274 PSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPP 333
           P +    + E  ++T++ IGGL +  ++L++ +E P+K+   F R+GI P +G LL+GPP
Sbjct: 165 PLVYNMTSFEQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPP 224
Query: 334 GCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEAD 393
           G                       + +   Y+GES  ++R  F  A+   P IIF DE D
Sbjct: 225 GTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVD 284
Query: 394 VVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFD 453
            +G +R    +++    +R L  LLT+MDG +      ++ ATNRP  +D AL+RPGR D
Sbjct: 285 AIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGRLD 344
Query: 454 LVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALR 513
             + +P P+   R EI ++HT  +K   + D  +  + ++ F GA++     EAG  A+R
Sbjct: 345 RKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCATEAGFFAIR 404
Query: 514 ED 515
           +D
Sbjct: 405 DD 406

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score =  155 bits (392), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 104/312 (33%), Positives = 159/312 (50%), Gaps = 22/312 (7%)
Query: 211 PLDANVDLEAIATSCNG--YVGADLEALCRE---ATMS-AVKRSSDANECAGVLSVTMED 264
           P+D N     I +S  G  YV   L  L RE    +MS A+ R S+A     ++ +   D
Sbjct: 102 PIDQNT---GIVSSTTGMSYVVRILSTLDRELLKPSMSVALHRHSNA-----LVDILPPD 153
Query: 265 WRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPV 324
              + SV+G +       E P VT+ D+GGL   K+++++AVE P+  +  + ++GI P 
Sbjct: 154 SDSSISVMGEN-------EKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPP 206
Query: 325 RGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAP 384
           RG LL+GPPG                      G+E    Y+GE   ++R+ F+ AR  AP
Sbjct: 207 RGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLARENAP 266
Query: 385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDA 444
           SIIF DE D +  KR  + + S    +R+L  LLT+MDG +Q+  + V+ ATNR   +D 
Sbjct: 267 SIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDP 326
Query: 445 ALMRPGRFDLVLYVPP-PDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGL 503
           AL+RPGR D  +  P   D   R  I       M +  + DL S+    +  +GA +  +
Sbjct: 327 ALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAI 386
Query: 504 CREAGIVALRED 515
            +EAG+ A+R++
Sbjct: 387 MQEAGLRAVRKN 398

>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 278

Iteration: 1
 Score =  153 bits (386), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 85/220 (38%), Positives = 125/220 (56%), Gaps = 1/220 (0%)
Query: 280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXX 339
           V  E PKVT++D+ G  + K++L++ VE+ +K+ + F  +G    +G LL GPPG     
Sbjct: 30  VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 88
Query: 340 XXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR 399
                            G++   M+VG   A +R+ F+ A+  AP I+F DE D VG KR
Sbjct: 89  LARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 148
Query: 400 GGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVP 459
           G          E+ L+ LL EMDG E+   I+V+AATNRP  +D AL+RPGRFD  + + 
Sbjct: 149 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAID 208
Query: 460 PPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAE 499
            PD++ R +ILR+H R   + +DVDL  +A+ T  F GA+
Sbjct: 209 APDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 248

>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 254

Iteration: 1
 Score =  152 bits (384), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 85/220 (38%), Positives = 125/220 (56%), Gaps = 1/220 (0%)
Query: 280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXX 339
           V  E PKVT++D+ G  + K++L++ VE+ +K+ + F  +G    +G LL GPPG     
Sbjct: 6   VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 64
Query: 340 XXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR 399
                            G++   M+VG   A +R+ F+ A+  AP I+F DE D VG KR
Sbjct: 65  LARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 124
Query: 400 GGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVP 459
           G          E+ L+ LL EMDG E+   I+V+AATNRP  +D AL+RPGRFD  + + 
Sbjct: 125 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAID 184
Query: 460 PPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAE 499
            PD++ R +ILR+H R   + +DVDL  +A+ T  F GA+
Sbjct: 185 APDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 224

>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 499

Iteration: 1
 Score =  152 bits (384), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 85/220 (38%), Positives = 125/220 (56%), Gaps = 1/220 (0%)
Query: 280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXX 339
           V  E PKVT++D+ G  + K++L++ VE+ +K+ + F  +G    +G LL GPPG     
Sbjct: 21  VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 79
Query: 340 XXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR 399
                            G++   M+VG   A +R+ F+ A+  AP I+F DE D VG KR
Sbjct: 80  LARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 139
Query: 400 GGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVP 459
           G          E+ L+ LL EMDG E+   I+V+AATNRP  +D AL+RPGRFD  + + 
Sbjct: 140 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAID 199
Query: 460 PPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAE 499
            PD++ R +ILR+H R   + +DVDL  +A+ T  F GA+
Sbjct: 200 APDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 239

>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 508

Iteration: 1
 Score =  152 bits (383), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 85/220 (38%), Positives = 125/220 (56%), Gaps = 1/220 (0%)
Query: 280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXX 339
           V  E PKVT++D+ G  + K++L++ VE+ +K+ + F  +G    +G LL GPPG     
Sbjct: 30  VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 88
Query: 340 XXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR 399
                            G++   M+VG   A +R+ F+ A+  AP I+F DE D VG KR
Sbjct: 89  LARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 148
Query: 400 GGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVP 459
           G          E+ L+ LL EMDG E+   I+V+AATNRP  +D AL+RPGRFD  + + 
Sbjct: 149 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAID 208
Query: 460 PPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAE 499
            PD++ R +ILR+H R   + +DVDL  +A+ T  F GA+
Sbjct: 209 APDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 248

>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent Protease, Ftsh Length = 268

Iteration: 1
 Score =  149 bits (377), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 87/250 (34%), Positives = 134/250 (53%), Gaps = 5/250 (2%)
Query: 280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXX 339
           +  E P V ++D+ G  + K+++ + V++ +K+   ++ LG    +G LL GPPG     
Sbjct: 1   INAEKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTL 59
Query: 340 XXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR 399
                            G+    M+VG   + +R+ F+ A+  APSIIF DE D +G  R
Sbjct: 60  LAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSR 119
Query: 400 G-GSSSTSITVGERLLSTLLTEMDGLEQAKG-ILVLAATNRPHAIDAALMRPGRFDLVLY 457
             G   +     E+ L+ LL EMDG       ++VLAATNRP  +D ALMRPGRFD  + 
Sbjct: 120 AAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVL 179
Query: 458 VPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDIS 517
           V  PD   R EIL+VH + +K+ +DV+L+ +A+ T    GA+L  +  EA ++A R +  
Sbjct: 180 VDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAGRNN-- 237
Query: 518 ATAVRNRHFQ 527
              VR +H +
Sbjct: 238 QKEVRQQHLK 247

>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp Length = 262

Iteration: 1
 Score =  142 bits (357), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 86/244 (35%), Positives = 132/244 (54%), Gaps = 6/244 (2%)
Query: 287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXXX 346
           V+++D+ G+ + K ++++ V++ +K    F +LG    +GALL GPPGC           
Sbjct: 3   VSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT 61
Query: 347 XXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGS-SST 405
                     GAE   +  G   A +R+ F+ AR  AP I++ DE D VG KR  + S  
Sbjct: 62  EAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGF 121
Query: 406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEA 465
           S T  E+ L+ LL EMDG+     ++VLA+TNR   +D ALMRPGR D  +++  P L+ 
Sbjct: 122 SNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQE 181
Query: 466 RHEILRVHTRNMKVGDDVDLRS--IAEETELFTGAELEGLCREAGIVALREDISATAVRN 523
           R EI   H +++K+       S  +AE T  F+GA++  +C EA + A RE    T+V  
Sbjct: 182 RREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAARE--GHTSVHT 239
Query: 524 RHFQ 527
            +F+
Sbjct: 240 LNFE 243

>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer Length = 331

Iteration: 1
 Score =  132 bits (331), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 89/262 (33%), Positives = 135/262 (51%), Gaps = 25/262 (9%)
Query: 276 ITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGC 335
           + RG   E P V WED+ GL   K+ L++AV  P+K    F +    P  G LL+GPPG 
Sbjct: 13  VPRGSLSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGT 71
Query: 336 XXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVV 395
                                 ++L S ++GESE L++  F  AR   PSIIF DE D +
Sbjct: 72  GKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDEVDAL 131
Query: 396 GAKRG-GSSSTSITVGERLLSTLLTEMDGL-EQAKGILVLAATNRPHAIDAALMRPGRFD 453
              RG G S  S     R+ + LL +M+G+   ++G+LVL ATN P  +D+A+ R  RF+
Sbjct: 132 TGTRGEGESEAS----RRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFE 185
Query: 454 LVLYVPPPDLEARHEILRVHTRNMKVGD------DVDLRSIAEETELFTGAELEGLCREA 507
             +Y+P PDL AR  +  ++     VGD        D R++   TE ++G+++  + ++A
Sbjct: 186 RRIYIPLPDLAARTTMFEIN-----VGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDA 240
Query: 508 GIVALREDISATAVRNRHFQTV 529
            +  +R+  SAT     HF+ V
Sbjct: 241 LMQPIRKIQSAT-----HFKDV 257

>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4 Length = 355

Iteration: 1
 Score =  129 bits (325), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 86/263 (32%), Positives = 136/263 (51%), Gaps = 25/263 (9%)
Query: 275 SITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPG 334
           +++  +  E P V WED+ GL   K+ L++AV  P+K    F +    P  G LL+GPPG
Sbjct: 36  ALSSAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPG 94
Query: 335 CXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADV 394
                                  ++L S ++GESE L++  F  AR   PSIIF D+ D 
Sbjct: 95  TGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDA 154
Query: 395 VGAKRG-GSSSTSITVGERLLSTLLTEMDGL-EQAKGILVLAATNRPHAIDAALMRPGRF 452
           +   RG G S  S     R+ + LL +M+G+   ++G+LVL ATN P  +D+A+ R  RF
Sbjct: 155 LTGTRGEGESEAS----RRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RF 208
Query: 453 DLVLYVPPPDLEARHEILRVHTRNMKVGD------DVDLRSIAEETELFTGAELEGLCRE 506
           +  +Y+P PDL AR  +  ++     VGD        D R++   TE ++G+++  + ++
Sbjct: 209 ERRIYIPLPDLAARTTMFEIN-----VGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKD 263
Query: 507 AGIVALREDISATAVRNRHFQTV 529
           A +  +R+  SAT     HF+ V
Sbjct: 264 ALMQPIRKIQSAT-----HFKDV 281

>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of Atpgammas Length = 340

Iteration: 1
 Score =  129 bits (323), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 86/263 (32%), Positives = 136/263 (51%), Gaps = 25/263 (9%)
Query: 275 SITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPG 334
           +++  +  E P V WED+ GL   K+ L++AV  P+K    F +    P  G LL+GPPG
Sbjct: 21  ALSSAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPG 79
Query: 335 CXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADV 394
                                  ++L S ++GESE L++  F  AR   PSIIF D+ D 
Sbjct: 80  TGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDA 139
Query: 395 VGAKRG-GSSSTSITVGERLLSTLLTEMDGL-EQAKGILVLAATNRPHAIDAALMRPGRF 452
           +   RG G S  S     R+ + LL +M+G+   ++G+LVL ATN P  +D+A+ R  RF
Sbjct: 140 LTGTRGEGESEAS----RRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RF 193
Query: 453 DLVLYVPPPDLEARHEILRVHTRNMKVGD------DVDLRSIAEETELFTGAELEGLCRE 506
           +  +Y+P PDL AR  +  ++     VGD        D R++   TE ++G+++  + ++
Sbjct: 194 ERRIYIPLPDLAARTTMFEIN-----VGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKD 248
Query: 507 AGIVALREDISATAVRNRHFQTV 529
           A +  +R+  SAT     HF+ V
Sbjct: 249 ALMQPIRKIQSAT-----HFKDV 266

>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound State Length = 322

Iteration: 1
 Score =  128 bits (321), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 84/250 (33%), Positives = 131/250 (52%), Gaps = 15/250 (6%)
Query: 283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXX 342
           E P V WED+ GL   K+ L++AV  P+K    F +    P  G LL+GPPG        
Sbjct: 11  EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAK 69
Query: 343 XXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRG-G 401
                          ++L S ++GESE L++  F  AR   PSIIF D+ D +   RG G
Sbjct: 70  AVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG 129
Query: 402 SSSTSITVGERLLSTLLTEMDGL-EQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPP 460
            S  S     R+ + LL +M+G+   ++G+LVL ATN P  +D+A+ R  RF+  +Y+P 
Sbjct: 130 ESEAS----RRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPL 183
Query: 461 PDLEARHEILRVHTRNMK-VGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISAT 519
           PDL AR  +  ++  +   V    D R++   TE ++G+++  + ++A +  +R+  SAT
Sbjct: 184 PDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSAT 243
Query: 520 AVRNRHFQTV 529
                HF+ V
Sbjct: 244 -----HFKDV 248

>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form Length = 444

Iteration: 1
 Score =  127 bits (318), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 86/256 (33%), Positives = 133/256 (51%), Gaps = 18/256 (7%)
Query: 280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGC-XXX 338
           + +E P V W D+ GL   K+ L++AV  PIK    F+    +P RG LL GPPG     
Sbjct: 124 IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSY 182
Query: 339 XXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAK 398
                              ++L S ++GESE L++N FQ AR   PSIIF DE D +   
Sbjct: 183 LAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGS 242
Query: 399 RGGSSSTSITVGERLLSTLLTEMDGLE-QAKGILVLAATNRPHAIDAALMRPGRFDLVLY 457
           R  + S +     R+ +  L +M G+     GILVL ATN P  +D+A+ R  RF+  +Y
Sbjct: 243 RSENESEA---ARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIY 297
Query: 458 VPPPDLEARHEILRVH---TRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           +P P+  AR  + R+H   T+N     + D + +  +T+ ++GA++  + R+A +  +R+
Sbjct: 298 IPLPEAHARAAMFRLHLGSTQNSLT--EADFQELGRKTDGYSGADISIIVRDALMQPVRK 355
Query: 515 DISATAVRNRHFQTVK 530
             SAT     HF+ V+
Sbjct: 356 VQSAT-----HFKKVR 366

>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b Length = 322

Iteration: 1
 Score =  126 bits (316), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 86/256 (33%), Positives = 133/256 (51%), Gaps = 18/256 (7%)
Query: 280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGC-XXX 338
           + +E P V W D+ GL   K+ L++AV  PIK    F+    +P RG LL GPPG     
Sbjct: 2   IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSY 60
Query: 339 XXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAK 398
                              ++L S ++GESE L++N FQ AR   PSIIF DE D +   
Sbjct: 61  LAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGS 120
Query: 399 RGGSSSTSITVGERLLSTLLTEMDGLE-QAKGILVLAATNRPHAIDAALMRPGRFDLVLY 457
           R  + S +     R+ +  L +M G+     GILVL ATN P  +D+A+ R  RF+  +Y
Sbjct: 121 RSENESEA---ARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIY 175
Query: 458 VPPPDLEARHEILRVH---TRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           +P P+  AR  + ++H   T+N     + D R +  +T+ ++GA++  + R+A +  +R+
Sbjct: 176 IPLPEPHARAAMFKLHLGTTQNSLT--EADFRELGRKTDGYSGADISIIVRDALMQPVRK 233
Query: 515 DISATAVRNRHFQTVK 530
             SAT     HF+ V+
Sbjct: 234 VQSAT-----HFKKVR 244

>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In Complex With Adp Length = 357

Iteration: 1
 Score =  119 bits (298), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 82/268 (30%), Positives = 127/268 (47%), Gaps = 23/268 (8%)
Query: 285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXX 344
           P V WEDI G+   K  +++ V WP+     F+ L   P +G LL GPPG          
Sbjct: 79  PPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCI 137
Query: 345 XXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSS 404
                        + L S +VGE E ++R  F  AR   P++IF DE D + ++RG    
Sbjct: 138 ASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEH 197
Query: 405 TSITVGERLLSTLLTEMDGLEQAKG--ILVLAATNRPHAIDAALMRPGRFDLVLYVPPPD 462
            S     R+ +  L ++DG   +    ILV+ ATNRP  ID A  R  R    LY+P P+
Sbjct: 198 ES---SRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR--RLVKRLYIPLPE 252
Query: 463 LEARHEI-LRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE------- 514
             AR +I + + ++      + ++  I ++++ F+GA++  LCREA +  +R        
Sbjct: 253 ASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIRSLQTADIA 312
Query: 515 DISATAVR-------NRHFQTVKDSLKP 535
            I+   VR          F+TV+ S+ P
Sbjct: 313 TITPDQVRPIAYIDFENAFRTVRPSVSP 340

>pdb|3VFD|A Chain A, Human Spastin Aaa Domain Length = 389

Iteration: 1
 Score =  106 bits (265), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 88/286 (30%), Positives = 135/286 (47%), Gaps = 22/286 (7%)
Query: 262 MEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGI 321
           ++++R+  S +   I   +      V ++DI G    K+ LQ+ V  P      F+ L  
Sbjct: 87  LKNFRNVDSNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLR- 145
Query: 322 SPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARL 381
           +P RG LL GPPG                       A L S YVGE E L+R  F  AR 
Sbjct: 146 APARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARE 205
Query: 382 AAPSIIFFDEAD-VVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKG--ILVLAATNR 438
             PSIIF D+ D ++  +R G    S     RL +  L E DG++ A    +LV+ ATNR
Sbjct: 206 LQPSIIFIDQVDSLLCERREGEHDAS----RRLKTEFLIEFDGVQSAGDDRVLVMGATNR 261
Query: 439 PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDV---DLRSIAEETELF 495
           P  +D A++R  RF   +YV  P+ E R  +  +     K G  +   +L  +A  T+ +
Sbjct: 262 PQELDEAVLR--RFIKRVYVSLPNEETRLLL--LKNLLCKQGSPLTQKELAQLARMTDGY 317
Query: 496 TGAELEGLCREAGIVALRE-------DISATAVRNRHFQTVKDSLK 534
           +G++L  L ++A +  +RE       ++SA+ +RN       +SLK
Sbjct: 318 SGSDLTALAKDAALGPIRELKPEQVKNMSASEMRNIRLSDFTESLK 363

>pdb|3B9P|A Chain A, Spastin Length = 297

Iteration: 1
 Score =  105 bits (263), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 88/257 (34%), Positives = 122/257 (47%), Gaps = 20/257 (7%)
Query: 286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXX 345
           KV W DI G    K+ LQ+ V  P      F+ L  +P +G LL GPPG           
Sbjct: 17  KVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVA 75
Query: 346 XXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST 405
                       A L S YVG+ E L+R  F  AR   PSIIF DE D + ++R  S   
Sbjct: 76  TECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHE 135
Query: 406 SITVGERLLSTLLTEMDGL---EQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPD 462
           +     RL +  L E DGL        I+VLAATNRP  +D A +R  RF   +YV  PD
Sbjct: 136 A---SRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPD 190
Query: 463 LEARHEIL-RVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE------- 514
            + R  +L R+  +     D   LR +A+ T+ ++G++L  L ++A +  +RE       
Sbjct: 191 EQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDAALEPIRELNVEQVK 250
Query: 515 --DISAT-AVRNRHFQT 528
             DISA  A+  + F +
Sbjct: 251 CLDISAMRAITEQDFHS 267

>pdb|3KW6|A Chain A, Crystal Structure Of A Domain Of 26s Proteasome Regulatory Subunit 8 From Homo Sapiens. Northeast Structural Genomics Consortium Target Id Hr3102a Length = 78

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 27/56 (48%), Positives = 39/56 (69%)
Query: 459 PPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           PPP+ EAR +IL++H+R   +   ++LR IAE     +GAE++G+C EAG  ALRE
Sbjct: 1   PPPNEEARLDILKIHSRKXNLTRGINLRKIAELXPGASGAEVKGVCTEAGXYALRE 56

>pdb|2KRK|A Chain A, Solution Nmr Structure Of 26s Protease Regulatory Subunit 8 From H.Sapiens, Northeast Structural Genomics Consortium Target Target Hr3102a Length = 86

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 26/54 (48%), Positives = 39/54 (72%)
Query: 461 PDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE 514
           P+ EAR +IL++H+R M +   ++LR IAE     +GAE++G+C EAG+ ALRE
Sbjct: 11  PNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRE 64

>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli Mgsa Length = 447

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/84 (32%), Positives = 46/84 (54%), Gaps = 12/84 (14%)
Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSG 115
           ++L+GPPGTGKT+L   + R   A +  IS        V    K +REA  +A  +  +G
Sbjct: 53  MILWGPPGTGKTTLAEVIARYANADVERISA-------VTSGVKEIREAIERARQNRNAG 105
Query: 116 KPSVVFIDEIDALCPRRDHRREQD 139
           + +++F+DE+      R ++ +QD
Sbjct: 106 RRTILFVDEV-----HRFNKSQQD 124

>pdb|4A3V|B Chain B, Yeast Regulatory Particle Proteasome Assembly Chaperone Hsm3 In Complex With Rpt1 C-Terminal Fragment Length = 95

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 28/74 (37%), Positives = 37/74 (50%), Gaps = 8/74 (10%)
Query: 461 PDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATA 520
           PDLE R  I R+H+++M V   +    I+      TGAEL  +C EAG+ A+R       
Sbjct: 8   PDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRA------ 61
Query: 521 VRNRHFQTVKDSLK 534
              R   T KD LK
Sbjct: 62  --RRKVATEKDFLK 73

>pdb|3T15|A Chain A, Structure Of Green-Type Rubisco Activase From Tobacco Length = 293

Iteration: 1
 Score = 45.8 bits (107), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 34/147 (23%), Positives = 64/147 (43%), Gaps = 10/147 (6%)
Query: 50  LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQAS 109
           +K P  L ++G  G GK+     V R+ G +  ++S   +   + GE  K +R+ + +A+
Sbjct: 33  IKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAA 92
Query: 110 SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD-SNKPSKTSVP------- 161
                G    +FI+++DA   R     +  V       TLM+ ++ P+   +P       
Sbjct: 93  EIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQE 152
Query: 162 --HVVVVASTNRVDAIDPALRRSGRFD 186
              V ++ + N    +   L R GR +
Sbjct: 153 NARVPIIVTGNDFSTLYAPLIRDGRME 179

>pdb|1OFH|A Chain A, Asymmetric Complex Between Hslv And I-domain Deleted Hslu (h. Influenzae) Length = 310

Iteration: 1
 Score = 43.1 bits (100), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 30/125 (24%), Positives = 58/125 (46%), Gaps = 9/125 (7%)
Query: 53  PRGLLLYGPPGTGKTSLVRAVVRECGA-HLTVISPHSVHKAHVGESEKALREAFSQASSH 111
           P+ +L+ GP G GKT + R + +   A  + V +       +VG+   ++    + ++  
Sbjct: 50  PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGG 109
Query: 112 ALSG--KPSVVFIDEIDALCPRRDHRREQDVR--IASQLFTLMD----SNKPSKTSVPHV 163
           A+    +  +VFIDEID +C + ++      R  +   L  L++    S K       H+
Sbjct: 110 AIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHI 169
Query: 164 VVVAS 168
           + +AS
Sbjct: 170 LFIAS 174

>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8 Length = 324

Iteration: 1
 Score = 42.4 bits (98), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 38/136 (27%), Positives = 61/136 (44%), Gaps = 24/136 (17%)
Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSG 115
           LLL+GPPG GKT+L   +  E G +L V S  ++ K   G+    L  +  +        
Sbjct: 41  LLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP--GDLAAILANSLEEG------- 91
Query: 116 KPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD-------SNKPSKTSVPHVVVVAS 168
              ++FIDEI  L      + E+ +  A + F +MD       + +  +  +P   ++ +
Sbjct: 92  --DILFIDEIHRLS----RQAEEHLYPAMEDF-VMDIVIGQGPAARTIRLELPRFTLIGA 144
Query: 169 TNRVDAID-PALRRSG 183
           T R   I  P L R G
Sbjct: 145 TTRPGLITAPLLSRFG 160

>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii Length = 318

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 38/136 (27%), Positives = 61/136 (44%), Gaps = 24/136 (17%)
Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSG 115
           LLL+GPPG GKT+L   +  E G +L V S  ++ K   G+    L  +  +        
Sbjct: 41  LLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP--GDLAAILANSLEEG------- 91
Query: 116 KPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD-------SNKPSKTSVPHVVVVAS 168
              ++FIDEI  L      + E+ +  A + F +MD       + +  +  +P   ++ +
Sbjct: 92  --DILFIDEIHRLS----RQAEEHLYPAMEDF-VMDIVIGQGPAARTIRLELPRFTLIGA 144
Query: 169 TNRVDAID-PALRRSG 183
           T R   I  P L R G
Sbjct: 145 TTRPGLITAPLLSRFG 160

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	611
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	0.0
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	3e-96
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-92
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-142
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-84
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	1e-129
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	1e-82
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	1e-114
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	1e-102
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	1e-102
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	4e-77
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	1e-91
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	2e-60
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	1e-88
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	1e-63
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	3e-88
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	4e-60
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	5e-88
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	6e-62
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	2e-87
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	1e-59
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	2e-86
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	2e-56
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	2e-83
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	2e-54
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	6e-72
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	2e-47
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	6e-71
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	2e-49
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	9e-71
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	1e-55
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	3e-70
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	8e-50
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	4e-70
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	7e-50
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	5e-70
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	1e-49
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	1e-64
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	1e-44
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	1e-64
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	9e-44
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	2e-58
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	2e-44
2krk_A	86	26S protease regulatory subunit 8; structural geno	1e-24
2krk_A	86	26S protease regulatory subunit 8; structural geno	3e-19
3kw6_A	78	26S protease regulatory subunit 8; structural geno	4e-24
3kw6_A	78	26S protease regulatory subunit 8; structural geno	9e-18
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	4e-21
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	2e-15
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-19
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-12
2dzn_B	82	26S protease regulatory subunit 6B homolog; ankyri	2e-18
2dzn_B	82	26S protease regulatory subunit 6B homolog; ankyri	1e-14
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	8e-18
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	8e-15
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	4e-16
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	2e-15
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	1e-14
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	1e-13
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	1e-10
3pvs_A	447	Replication-associated recombination protein A; ma	1e-10
3pvs_A	447	Replication-associated recombination protein A; ma	2e-05
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	6e-09
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	2e-06
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	1e-08
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	1e-08
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	4e-07
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	1e-06
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	1e-05
2chg_A	226	Replication factor C small subunit; DNA-binding pr	2e-05
2qgz_A	308	Helicase loader, putative primosome component; str	3e-05
2chq_A	319	Replication factor C small subunit; DNA-binding pr	3e-05
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	3e-05
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	4e-05
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	7e-05
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	4e-04
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	4e-04
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	4e-04
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	7e-04
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	9e-04

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus} Length = 301

 Score =  414 bits (1067), Expect = e-142
 Identities = 116/297 (39%), Positives = 179/297 (60%), Gaps = 23/297 (7%)

Query: 278 RGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSK 337
           R   VE+P+VTWEDIGGL D+K++LQ+ V++P++H   F + G++P +G L +GPPGC K
Sbjct: 3   RETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGK 62

Query: 338 TTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA 397
           T LAKA A+  +A+F S+ G EL +M+ GESEA +R  F +AR AAP ++FFDE D +  
Sbjct: 63  TLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAK 122

Query: 398 KRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLY 457
            RGG+        +R+++ +LTEMDG+   K + ++ ATNRP  ID A++RPGR D ++Y
Sbjct: 123 ARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIY 182

Query: 458 VPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDIS 517
           +P PD ++R  IL+ + R   V  DVDL  +A+ T  F+GA+L  +C+ A  +A+RE I 
Sbjct: 183 IPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIE 242

Query: 518 ATA-----------------------VRNRHFQTVKDSLKPALTKEEIDSYSSFMKS 551
           +                         +R  HF+      + +++  +I  Y  F ++
Sbjct: 243 SEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVSDNDIRKYEMFAQT 299

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus} Length = 301

 Score =  265 bits (680), Expect = 1e-84
 Identities = 91/305 (29%), Positives = 140/305 (45%), Gaps = 42/305 (13%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           IGG       L+EL+ +P+ +  +  K G+   +G+L YGPPG GKT L +A+  EC A+
Sbjct: 17  IGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN 76

Query: 81  -LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQD 139
            +++  P  +     GESE  +RE F +A   A    P V+F DE+D++   R       
Sbjct: 77  FISIKGPELLTM-WFGESEANVREIFDKARQAA----PCVLFFDELDSIAKARGGNIGDG 131

Query: 140 V----RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPT 195
                R+ +Q+ T MD     K     V ++ +TNR D IDPA+ R GR D  + + +P 
Sbjct: 132 GGAADRVINQILTEMDGMSTKKN----VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 187

Query: 196 AEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA---- 251
            + R  ILK   +K P+  +VDLE +A   NG+ GADL  +C+ A   A++ S ++    
Sbjct: 188 EKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRR 247

Query: 252 -------------NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDL 298
                         E   V  +  + +  A      S           V+  DI      
Sbjct: 248 ERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRS-----------VSDNDIRKYEMF 296

Query: 299 KKKLQ 303
            + LQ
Sbjct: 297 AQTLQ 301

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score =  379 bits (975), Expect = e-129
 Identities = 109/275 (39%), Positives = 166/275 (60%), Gaps = 17/275 (6%)

Query: 281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTL 340
           ++ +P VTW DIG L D++++L  A+  P+++   F  LG+    G LL GPPGC KT L
Sbjct: 1   SMTVPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLL 60

Query: 341 AKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRG 400
           AKA A+ +  +F S+ G EL +MYVGESE  +R  FQRA+ +AP +IFFDE D +  +R 
Sbjct: 61  AKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRS 120

Query: 401 GSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPP 460
              +       R+++ LLTEMDGLE  + + ++AATNRP  ID A++RPGR D  L+V  
Sbjct: 121 DRET---GASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGL 177

Query: 461 PDLEARHEILRVHTRN---MKVGDDVDLRSIAEE--TELFTGAELEGLCREAGIVALRED 515
           P    R  IL+  T+N     +  DV+L +IA +   + +TGA+L  L REA I ALR++
Sbjct: 178 PPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQE 237

Query: 516 ISA---------TAVRNRHFQTVKDSLKPALTKEE 541
           ++            V ++HF+     ++ +++K++
Sbjct: 238 MARQKSGNEKGELKVSHKHFEEAFKKVRSSISKKD 272

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score =  259 bits (665), Expect = 1e-82
 Identities = 110/273 (40%), Positives = 153/273 (56%), Gaps = 21/273 (7%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           IG      E L   I  P+    Q + LGL  P G+LL GPPG GKT L +AV  E G +
Sbjct: 12  IGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLN 71

Query: 81  -LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQD 139
            ++V  P  ++  +VGESE+A+R+ F +A + A    P V+F DE+DALCPRR   RE  
Sbjct: 72  FISVKGPELLNM-YVGESERAVRQVFQRAKNSA----PCVIFFDEVDALCPRRSD-RETG 125

Query: 140 V--RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE 197
              R+ +QL T MD  +  +     V ++A+TNR D IDPA+ R GR D  + V +P   
Sbjct: 126 ASVRVVNQLLTEMDGLEARQQ----VFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPA 181

Query: 198 ERFEILKLYTK---KVPLDANVDLEAIATS--CNGYVGADLEALCREATMSAVKRS---S 249
           +R  ILK  TK   K PLDA+V+LEAIA    C+ Y GADL AL REA++ A+++     
Sbjct: 182 DRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQEMARQ 241

Query: 250 DANECAGVLSVTMEDWRHARSVVGPSITRGVTV 282
            +    G L V+ + +  A   V  SI++   +
Sbjct: 242 KSGNEKGELKVSHKHFEEAFKKVRSSISKKDQI 274

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score =  347 bits (893), Expect = e-114
 Identities = 130/296 (43%), Positives = 182/296 (61%), Gaps = 21/296 (7%)

Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           + IGG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E G
Sbjct: 204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG 263

Query: 79  AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-RE 137
           A   +I+   +     GESE  LR+AF +A  +A    P+++FIDE+DA+ P+R+    E
Sbjct: 264 AFFFLINGPEIMSKLAGESESNLRKAFEEAEKNA----PAIIFIDELDAIAPKREKTHGE 319

Query: 138 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE 197
            + RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD EV++ +P A 
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375

Query: 198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN----- 252
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435

Query: 253 ----ECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQ 304
               E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGG          
Sbjct: 436 TIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGRSHHH---HH 488

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score =  318 bits (817), Expect = e-102
 Identities = 112/296 (37%), Positives = 161/296 (54%), Gaps = 18/296 (6%)

Query: 260 VTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRL 319
             +           P         + +V ++DIGG R    ++++ VE P++H   F  +
Sbjct: 174 CIVAPDTVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAI 233

Query: 320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRA 379
           G+ P RG LL+GPPG  KT +A+A A+   A FF ++G E+ S   GESE+ LR  F+ A
Sbjct: 234 GVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA 293

Query: 380 RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP 439
              AP+IIF DE D +  KR  +      V  R++S LLT MDGL+Q   ++V+AATNRP
Sbjct: 294 EKNAPAIIFIDELDAIAPKREKTHG---EVERRIVSQLLTLMDGLKQRAHVIVMAATNRP 350

Query: 440 HAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAE 499
           ++ID AL R GRFD  + +  PD   R EIL++HT+NMK+ DDVDL  +A ET    GA+
Sbjct: 351 NSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGAD 410

Query: 500 LEGLCREAGIVALR---------------EDISATAVRNRHFQTVKDSLKPALTKE 540
           L  LC EA + A+R               E +++ AV    F+       P+  +E
Sbjct: 411 LAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRE 466

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score =  311 bits (799), Expect = e-102
 Identities = 107/259 (41%), Positives = 157/259 (60%), Gaps = 2/259 (0%)

Query: 282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLA 341
            E P V +EDIGGL    +++++ VE P+KH   F ++GI P +G LL+GPPG  KT LA
Sbjct: 9   DERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLA 68

Query: 342 KAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGG 401
           KA A    A+F  + G+EL   ++GE  +L+++ F+ A+  APSIIF DE D + AKR  
Sbjct: 69  KAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTD 128

Query: 402 SSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPP 461
           + +      +R L  LL EMDG +    + ++ ATNRP  +D A++RPGRFD ++ VP P
Sbjct: 129 ALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAP 188

Query: 462 DLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAV 521
           D + R EIL++HTR M + +DV+L  IA+ TE   GAEL+ +C EAG+ A+RE      V
Sbjct: 189 DEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIREL--RDYV 246

Query: 522 RNRHFQTVKDSLKPALTKE 540
               F+   + +      +
Sbjct: 247 TMDDFRKAVEKIMEKKKVK 265

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score =  245 bits (628), Expect = 4e-77
 Identities = 100/262 (38%), Positives = 145/262 (55%), Gaps = 22/262 (8%)

Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           E IGG    ++ +RE++  PL +    +K+G++ P+G+LLYGPPGTGKT L +AV  E  
Sbjct: 17  EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETN 76

Query: 79  AH-LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRR 136
           A  + V+    V K  +GE    +++ F  A   A    PS++FIDEIDA+  +R D   
Sbjct: 77  ATFIRVVGSELVKK-FIGEGASLVKDIFKLAKEKA----PSIIFIDEIDAIAAKRTDALT 131

Query: 137 EQDV---RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV 193
             D    R   QL   MD           V ++ +TNR D +DPA+ R GRFD  +EV  
Sbjct: 132 GGDREVQRTLMQLLAEMDGFDARG----DVKIIGATNRPDILDPAILRPGRFDRIIEVPA 187

Query: 194 PTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE 253
           P  + R EILK++T+K+ L  +V+LE IA    G VGA+L+A+C EA M+A++   D   
Sbjct: 188 PDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRELRD--- 244

Query: 254 CAGVLSVTMEDWRHARSVVGPS 275
                 VTM+D+R A   +   
Sbjct: 245 -----YVTMDDFRKAVEKIMEK 261

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C Length = 322

 Score =  285 bits (730), Expect = 1e-91
 Identities = 95/321 (29%), Positives = 155/321 (48%), Gaps = 49/321 (15%)

Query: 273 GPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGP 332
           G      +  E P V WED+ GL   K+ L++AV  P+K    F      P  G LL+GP
Sbjct: 1   GIDPFTAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGP 59

Query: 333 PGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEA 392
           PG  K+ LAKA A  A ++FFS+S ++L S ++GESE L++  F  AR   PSIIF D+ 
Sbjct: 60  PGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQV 119

Query: 393 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGL-EQAKGILVLAATNRPHAIDAALMRPGR 451
           D +   RG   S +     R+ + LL +M+G+   ++G+LVL ATN P  +D+A+ R  R
Sbjct: 120 DALTGTRGEGESEA---SRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--R 174

Query: 452 FDLVLYVPPPDLEARHEILRVHTRNMK-VGDDVDLRSIAEETELFTGAELEGLCREAGIV 510
           F+  +Y+P PDL AR  +  ++  +   V    D R++   TE ++G+++  + ++A + 
Sbjct: 175 FERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQ 234

Query: 511 ALREDISAT-----------------------------------------AVRNRHFQTV 529
            +R+  SAT                                          +  + F   
Sbjct: 235 PIRKIQSATHFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKA 294

Query: 530 KDSLKPALTKEEIDSYSSFMK 550
             S +P + ++++     F +
Sbjct: 295 IKSTRPTVNEDDLLKQEQFTR 315

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C Length = 322

 Score =  202 bits (517), Expect = 2e-60
 Identities = 80/297 (26%), Positives = 135/297 (45%), Gaps = 26/297 (8%)

Query: 7   IMSEH-NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTG 65
           I+SE  N KW   E + G   A EAL+E +  P+ +     K   K   G+LLYGPPGTG
Sbjct: 8   ILSEKPNVKW---EDVAGLEGAKEALKEAVILPVKFP-HLFKGNRKPTSGILLYGPPGTG 63

Query: 66  KTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEI 125
           K+ L +AV  E  +    +S   +    +GESEK +++ F+ A  +     PS++FID++
Sbjct: 64  KSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENK----PSIIFIDQV 119

Query: 126 DALCPRRDHRREQDV--RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSG 183
           DAL   R    E +   RI ++L   M+           V+V+ +TN    +D A+RR  
Sbjct: 120 DALTGTRG-EGESEASRRIKTELLVQMNGVGNDSQ---GVLVLGATNIPWQLDSAIRR-- 173

Query: 184 RFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREATM 242
           RF+  + + +P    R  + ++     P      D   +     GY G+D+  + ++A M
Sbjct: 174 RFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALM 233

Query: 243 SAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVT--------VEIPKVTWED 291
             +++   A     V +   E  +      G      ++        ++ P +T +D
Sbjct: 234 QPIRKIQSATHFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPDLTIKD 290

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score =  276 bits (707), Expect = 1e-88
 Identities = 96/291 (32%), Positives = 145/291 (49%), Gaps = 20/291 (6%)

Query: 274 PSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPP 333
             I   +     KV W DI G    K+ LQ+ V  P      F+ L  +P +G LL GPP
Sbjct: 5   QLILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPP 63

Query: 334 GCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEAD 393
           G  KT LA+A A    A+F ++S A L S YVG+ E L+R  F  AR   PSIIF DE D
Sbjct: 64  GNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVD 123

Query: 394 VVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKG---ILVLAATNRPHAIDAALMRPG 450
            + ++R  S   +     RL +  L E DGL        I+VLAATNRP  +D A +R  
Sbjct: 124 SLLSERSSSEHEAS---RRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR-- 178

Query: 451 RFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGI 509
           RF   +YV  PD + R  +L    +      D   LR +A+ T+ ++G++L  L ++A +
Sbjct: 179 RFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDAAL 238

Query: 510 VALRE-------DISATAVRN---RHFQTVKDSLKPALTKEEIDSYSSFMK 550
             +RE        +  +A+R    + F +    ++ ++  + ++SY  + +
Sbjct: 239 EPIRELNVEQVKCLDISAMRAITEQDFHSSLKRIRRSVAPQSLNSYEKWSQ 289

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score =  211 bits (538), Expect = 1e-63
 Identities = 79/266 (29%), Positives = 128/266 (48%), Gaps = 18/266 (6%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           I G   A +AL+E++  P +       L     +GLLL+GPPG GKT L RAV  EC A 
Sbjct: 23  IAGQDVAKQALQEMVILPSVRPELFTGL-RAPAKGLLLFGPPGNGKTLLARAVATECSAT 81

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR---DHRRE 137
              IS  S+   +VG+ EK +R  F+ A        PS++FIDE+D+L   R   +H  E
Sbjct: 82  FLNISAASLTSKYVGDGEKLVRALFAVARHMQ----PSIIFIDEVDSLLSERSSSEH--E 135

Query: 138 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE 197
              R+ ++     D           +VV+A+TNR   +D A  R  RF   V V++P  +
Sbjct: 136 ASRRLKTEFLVEFDGLP-GNPDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQ 192

Query: 198 ERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN---- 252
            R  +L    +K     +   L  +A   +GY G+DL AL ++A +  ++  +       
Sbjct: 193 TRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDAALEPIRELNVEQVKCL 252

Query: 253 ECAGVLSVTMEDWRHARSVVGPSITR 278
           + + + ++T +D+  +   +  S+  
Sbjct: 253 DISAMRAITEQDFHSSLKRIRRSVAP 278

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score =  276 bits (707), Expect = 3e-88
 Identities = 96/271 (35%), Positives = 148/271 (54%), Gaps = 14/271 (5%)

Query: 279 GVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKT 338
            + +E P V W D+ GL   K+ L++AV  PIK    F+    +P RG LL GPPG  K+
Sbjct: 1   AIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTGKS 59

Query: 339 TLAKAAAH-AAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA 397
            LAKA A  A  ++FFS+S ++L S ++GESE L++N FQ AR   PSIIF DE D +  
Sbjct: 60  YLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCG 119

Query: 398 KRGGSSSTSITVGERLLSTLLTEMDGLEQAK-GILVLAATNRPHAIDAALMRPGRFDLVL 456
            R  + S       R+ +  L +M G+     GILVL ATN P  +D+A+ R  RF+  +
Sbjct: 120 SRSENES---EAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRI 174

Query: 457 YVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALRED 515
           Y+P P+  AR  + ++H    +    + D R +  +T+ ++GA++  + R+A +  +R+ 
Sbjct: 175 YIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRKV 234

Query: 516 ISATAVRNRHFQTVKDSLKPALTKEEIDSYS 546
            SAT     HF+ V+   +        D  +
Sbjct: 235 QSAT-----HFKKVRGPSRADPNHLVDDLLT 260

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score =  202 bits (515), Expect = 4e-60
 Identities = 82/306 (26%), Positives = 130/306 (42%), Gaps = 37/306 (12%)

Query: 7   IMSEH-NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTG 65
           I+ E  N KW     + G   A EAL+E +  P+ +            RG+LL+GPPGTG
Sbjct: 2   IVIERPNVKW---SDVAGLEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTG 57

Query: 66  KTSLVRAVVRECGAH--LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFID 123
           K+ L +AV  E       ++ S   V K  +GESEK ++  F  A  +     PS++FID
Sbjct: 58  KSYLAKAVATEANNSTFFSISSSDLVSK-WLGESEKLVKNLFQLARENK----PSIIFID 112

Query: 124 EIDALCPRR---DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALR 180
           EID+LC  R   +   E   RI ++    M            ++V+ +TN    +D A+R
Sbjct: 113 EIDSLCGSRSENES--EAARRIKTEFLVQMQGVGVDND---GILVLGATNIPWVLDSAIR 167

Query: 181 RSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCRE 239
           R  RF+  + + +P    R  + KL+           D   +    +GY GAD+  + R+
Sbjct: 168 R--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRD 225

Query: 240 ATMSAVKRSSDA-------NECAGVLSVTMEDWRHARSVVGPSITRGVTVEI-------P 285
           A M  V++   A              +  ++D     S   P       +++       P
Sbjct: 226 ALMQPVRKVQSATHFKKVRGPSRADPNHLVDDLLTPCSPGDPGAIEMTWMDVPGDKLLEP 285

Query: 286 KVTWED 291
            V+  D
Sbjct: 286 VVSMSD 291

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens} Length = 357

 Score =  276 bits (708), Expect = 5e-88
 Identities = 94/350 (26%), Positives = 164/350 (46%), Gaps = 31/350 (8%)

Query: 226 NGYVGADLEALCREATMSAVKRSSDANECAGV------------LSVTMEDWRHARSVVG 273
           +  V    E L  ++ +  + +     +  G+                 E  ++    + 
Sbjct: 8   SSGVDLGTENLYFQSMVPPIPKQDGGEQNGGMQCKPYGAGPTEPAHPVDERLKNLEPKMI 67

Query: 274 PSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPP 333
             I   +    P V WEDI G+   K  +++ V WP+     F+ L   P +G LL GPP
Sbjct: 68  ELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPP 126

Query: 334 GCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEAD 393
           G  KT + K  A  + A+FFS+S + L S +VGE E ++R  F  AR   P++IF DE D
Sbjct: 127 GTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEID 186

Query: 394 VVGAKRGGSSSTSITVGERLLSTLLTEMDGL--EQAKGILVLAATNRPHAIDAALMRPGR 451
            + ++RG     S     R+ +  L ++DG        ILV+ ATNRP  ID A  R  R
Sbjct: 187 SLLSQRGDGEHESS---RRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR--R 241

Query: 452 FDLVLYVPPPDLEARHEILRVH-TRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIV 510
               LY+P P+  AR +I+    ++      + ++  I ++++ F+GA++  LCREA + 
Sbjct: 242 LVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLG 301

Query: 511 ALREDISAT----------AVRNRHFQTVKDSLKPALTKEEIDSYSSFMK 550
            +R   +A            +    F+    +++P+++ ++++ Y ++ K
Sbjct: 302 PIRSLQTADIATITPDQVRPIAYIDFENAFRTVRPSVSPKDLELYENWNK 351

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens} Length = 357

 Score =  208 bits (531), Expect = 6e-62
 Identities = 81/266 (30%), Positives = 128/266 (48%), Gaps = 19/266 (7%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           I G   A   ++E++ +P+L       L    P+G+LL+GPPGTGKT + + +  + GA 
Sbjct: 86  IAGVEFAKATIKEIVVWPMLRPDIFTGL-RGPPKGILLFGPPGTGKTLIGKCIASQSGAT 144

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR---DHRRE 137
              IS  S+    VGE EK +R  F+ A        P+V+FIDEID+L  +R   +H  E
Sbjct: 145 FFSISASSLTSKWVGEGEKMVRALFAVARCQQ----PAVIFIDEIDSLLSQRGDGEH--E 198

Query: 138 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE 197
              RI ++    +D    S      ++VV +TNR   ID A RR  R    + + +P A 
Sbjct: 199 SSRRIKTEFLVQLDGATTSSED--RILVVGATNRPQEIDEAARR--RLVKRLYIPLPEAS 254

Query: 198 ERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN---- 252
            R +I+     K        ++E I    + + GAD+  LCREA++  ++    A+    
Sbjct: 255 ARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIRSLQTADIATI 314

Query: 253 ECAGVLSVTMEDWRHARSVVGPSITR 278
               V  +   D+ +A   V PS++ 
Sbjct: 315 TPDQVRPIAYIDFENAFRTVRPSVSP 340

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score =  276 bits (707), Expect = 2e-87
 Identities = 106/381 (27%), Positives = 172/381 (45%), Gaps = 35/381 (9%)

Query: 199 RFEILKLYTKKVPLDANVDLEAIATSC-----NGYVGADLEALCREATMSAVKR------ 247
           R + L   +  +P    V     A          Y G  + +  ++ +  A         
Sbjct: 8   RKDPLTHTSNSLPRSKTVMKTGSAGLSGHHRAPSYSGLSMVSGVKQGSGPAPTTHKGTPK 67

Query: 248 -----SSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKL 302
                       A      ++++R+  S +   I   +      V ++DI G    K+ L
Sbjct: 68  TNRTNKPSTPTTATRKKKDLKNFRNVDSNLANLIMNEIVDNGTAVKFDDIAGQDLAKQAL 127

Query: 303 QQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS 362
           Q+ V  P      F+ L  +P RG LL GPPG  KT LAKA A  + A+FF++S A L S
Sbjct: 128 QEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTS 186

Query: 363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD 422
            YVGE E L+R  F  AR   PSIIF D+ D +  +R      +     RL +  L E D
Sbjct: 187 KYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDAS---RRLKTEFLIEFD 243

Query: 423 GLEQA--KGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG 480
           G++ A    +LV+ ATNRP  +D A++R  RF   +YV  P+ E R  +L+         
Sbjct: 244 GVQSAGDDRVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNLLCKQGSP 301

Query: 481 -DDVDLRSIAEETELFTGAELEGLCREAGIVALRE-------DISATAVRN---RHFQTV 529
               +L  +A  T+ ++G++L  L ++A +  +RE       ++SA+ +RN     F   
Sbjct: 302 LTQKELAQLARMTDGYSGSDLTALAKDAALGPIRELKPEQVKNMSASEMRNIRLSDFTES 361

Query: 530 KDSLKPALTKEEIDSYSSFMK 550
              +K +++ + +++Y  + K
Sbjct: 362 LKKIKRSVSPQTLEAYIRWNK 382

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score =  203 bits (517), Expect = 1e-59
 Identities = 78/266 (29%), Positives = 127/266 (47%), Gaps = 19/266 (7%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           I G   A +AL+E++  P L       L     RGLLL+GPPG GKT L +AV  E  A 
Sbjct: 117 IAGQDLAKQALQEIVILPSLRPELFTGL-RAPARGLLLFGPPGNGKTMLAKAVAAESNAT 175

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR---DHRRE 137
              IS  S+   +VGE EK +R  F+ A        PS++FID++D+L   R   +H  +
Sbjct: 176 FFNISAASLTSKYVGEGEKLVRALFAVARELQ----PSIIFIDQVDSLLCERREGEH--D 229

Query: 138 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE 197
              R+ ++     D  + +      V+V+ +TNR   +D A+ R  RF   V V++P  E
Sbjct: 230 ASRRLKTEFLIEFDGVQSAGDD--RVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEE 285

Query: 198 ERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN---- 252
            R  +LK    K        +L  +A   +GY G+DL AL ++A +  ++          
Sbjct: 286 TRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDAALGPIRELKPEQVKNM 345

Query: 253 ECAGVLSVTMEDWRHARSVVGPSITR 278
             + + ++ + D+  +   +  S++ 
Sbjct: 346 SASEMRNIRLSDFTESLKKIKRSVSP 371

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A* Length = 355

 Score =  272 bits (697), Expect = 2e-86
 Identities = 95/348 (27%), Positives = 163/348 (46%), Gaps = 49/348 (14%)

Query: 247 RSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAV 306
             S+            ++       +  +++  +  E P V WED+ GL   K+ L++AV
Sbjct: 8   SGSNGGNKKISQEEGEDNGGEDNKKLRGALSSAILSEKPNVKWEDVAGLEGAKEALKEAV 67

Query: 307 EWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVG 366
             P+K    F +    P  G LL+GPPG  K+ LAKA A  A ++FFS+S ++L S ++G
Sbjct: 68  ILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMG 126

Query: 367 ESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL-E 425
           ESE L++  F  AR   PSIIF D+ D +   RG   S +     R+ + LL +M+G+  
Sbjct: 127 ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEA---SRRIKTELLVQMNGVGN 183

Query: 426 QAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMK-VGDDVD 484
            ++G+LVL ATN P  +D+A+ R  RF+  +Y+P PDL AR  +  ++  +   V    D
Sbjct: 184 DSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSVLTKED 241

Query: 485 LRSIAEETELFTGAELEGLCREAGIVALREDISATA------------------------ 520
            R++   TE ++G+++  + ++A +  +R+  SAT                         
Sbjct: 242 YRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKDVSTEDDETRKLTPSSPGDDGA 301

Query: 521 -----------------VRNRHFQTVKDSLKPALTKEEIDSYSSFMKS 551
                            +  + F     S +P + ++++     F + 
Sbjct: 302 IEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTVNEDDLLKQEQFTRD 349

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A* Length = 355

 Score =  193 bits (492), Expect = 2e-56
 Identities = 81/296 (27%), Positives = 136/296 (45%), Gaps = 24/296 (8%)

Query: 7   IMSEH-NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTG 65
           I+SE  N KW   E + G   A EAL+E +  P+ +     K   K   G+LLYGPPGTG
Sbjct: 41  ILSEKPNVKW---EDVAGLEGAKEALKEAVILPVKFP-HLFKGNRKPTSGILLYGPPGTG 96

Query: 66  KTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEI 125
           K+ L +AV  E  +    +S   +    +GESEK +++ F+ A  +     PS++FID++
Sbjct: 97  KSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENK----PSIIFIDQV 152

Query: 126 DALCPRR-DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGR 184
           DAL   R +   E   RI ++L   M+           V+V+ +TN    +D A+RR  R
Sbjct: 153 DALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ---GVLVLGATNIPWQLDSAIRR--R 207

Query: 185 FDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREATMS 243
           F+  + + +P    R  + ++     P      D   +     GY G+D+  + ++A M 
Sbjct: 208 FERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQ 267

Query: 244 AVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVT--------VEIPKVTWED 291
            +++   A     V +   E  +   S  G      ++        ++ P +T +D
Sbjct: 268 PIRKIQSATHFKDVSTEDDETRKLTPSSPGDDGAIEMSWTDIEADELKEPDLTIKD 323

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A Length = 444

 Score =  267 bits (684), Expect = 2e-83
 Identities = 96/276 (34%), Positives = 151/276 (54%), Gaps = 14/276 (5%)

Query: 274 PSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPP 333
             +   + +E P V W D+ GL   K+ L++AV  PIK    F+    +P RG LL GPP
Sbjct: 118 NQLQGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPP 176

Query: 334 GCSKTTLAKA-AAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEA 392
           G  K+ LAKA A  A  ++FFS+S ++L S ++GESE L++N FQ AR   PSIIF DE 
Sbjct: 177 GTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEI 236

Query: 393 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-QAKGILVLAATNRPHAIDAALMRPGR 451
           D +   R  + S +     R+ +  L +M G+     GILVL ATN P  +D+A+ R  R
Sbjct: 237 DSLCGSRSENESEA---ARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--R 291

Query: 452 FDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIV 510
           F+  +Y+P P+  AR  + R+H  + +    + D + +  +T+ ++GA++  + R+A + 
Sbjct: 292 FEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDALMQ 351

Query: 511 ALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYS 546
            +R+  SAT     HF+ V+   +        D  +
Sbjct: 352 PVRKVQSAT-----HFKKVRGPSRADPNCIVNDLLT 382

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A Length = 444

 Score =  190 bits (484), Expect = 2e-54
 Identities = 83/304 (27%), Positives = 133/304 (43%), Gaps = 33/304 (10%)

Query: 7   IMSEH-NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTG 65
           I+ E  N KW     + G   A EAL+E +  P+ +          W RG+LL+GPPGTG
Sbjct: 124 IVIERPNVKW---SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPW-RGILLFGPPGTG 179

Query: 66  KTSLVRAVVRECGAH--LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFID 123
           K+ L +AV  E       ++ S   V K  +GESEK ++  F  A  +     PS++FID
Sbjct: 180 KSYLAKAVATEANNSTFFSISSSDLVSK-WLGESEKLVKNLFQLARENK----PSIIFID 234

Query: 124 EIDALCPRR-DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRS 182
           EID+LC  R ++  E   RI ++    M            ++V+ +TN    +D A+RR 
Sbjct: 235 EIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND---GILVLGATNIPWVLDSAIRR- 290

Query: 183 GRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREAT 241
            RF+  + + +P A  R  + +L+           D + +    +GY GAD+  + R+A 
Sbjct: 291 -RFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDAL 349

Query: 242 MSAVKRSSDA-------NECAGVLSVTMEDWRHARSVVGPSITRGVTVEI-------PKV 287
           M  V++   A              +  + D     S   P       +++       P V
Sbjct: 350 MQPVRKVQSATHFKKVRGPSRADPNCIVNDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVV 409

Query: 288 TWED 291
           +  D
Sbjct: 410 SMWD 413

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Length = 262

 Score =  231 bits (591), Expect = 6e-72
 Identities = 95/249 (38%), Positives = 145/249 (58%), Gaps = 6/249 (2%)

Query: 286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAA 345
            V+++D+ G+ + K ++++ V++ +K    F +LG    +GALL GPPGC KT LAKA A
Sbjct: 2   GVSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVA 60

Query: 346 HAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRG-GSSS 404
             A+  F +++GAE   +  G   A +R+ F+ AR  AP I++ DE D VG KR    S 
Sbjct: 61  TEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSG 120

Query: 405 TSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLE 464
            S T  E+ L+ LL EMDG+     ++VLA+TNR   +D ALMRPGR D  +++  P L+
Sbjct: 121 FSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQ 180

Query: 465 ARHEILRVHTRNMKVGDDVDLRS--IAEETELFTGAELEGLCREAGIVALREDISATAVR 522
            R EI   H +++K+       S  +AE T  F+GA++  +C EA + A RE    T+V 
Sbjct: 181 ERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAREG--HTSVH 238

Query: 523 NRHFQTVKD 531
             +F+   +
Sbjct: 239 TLNFEYAVE 247

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Length = 262

 Score =  166 bits (422), Expect = 2e-47
 Identities = 81/260 (31%), Positives = 123/260 (47%), Gaps = 32/260 (12%)

Query: 27  AVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP 86
           A   +RE + + L    +  +LG K P+G LL GPPG GKT L +AV  E       ++ 
Sbjct: 14  AKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAG 72

Query: 87  HSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR--------DHRREQ 138
               +   G     +R  F +A + A    P +V+IDEIDA+  +R        +   EQ
Sbjct: 73  AEFVEVIGGLGAARVRSLFKEARARA----PCIVYIDEIDAVGKKRSTTMSGFSNTEEEQ 128

Query: 139 DVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEE 198
            +   +QL   MD    +     HV+V+ASTNR D +D AL R GR D  V + +PT +E
Sbjct: 129 TL---NQLLVEMDGMGTTD----HVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQE 181

Query: 199 RFEILKLYTKKVPLDANVDLEA--IATSCNGYVGADLEALCREATMSAVKRSSDANECAG 256
           R EI + + K + L  +    +  +A    G+ GAD+  +C EA + A +          
Sbjct: 182 RREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAREGHT------ 235

Query: 257 VLSVTMEDWRHA--RSVVGP 274
             SV   ++ +A  R + G 
Sbjct: 236 --SVHTLNFEYAVERVLAGT 253

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score =  228 bits (584), Expect = 6e-71
 Identities = 101/252 (40%), Positives = 150/252 (59%), Gaps = 3/252 (1%)

Query: 280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTT 339
           +T +  K T+ D+ G  + K+++ + VE+ ++  + F +LG    +G L+ GPPG  KT 
Sbjct: 2   LTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTL 60

Query: 340 LAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR 399
           LAKA A  A+  FF++SG++   M+VG   + +R+ F++A+ AAP IIF DE D VG +R
Sbjct: 61  LAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQR 120

Query: 400 GGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVP 459
           G          E+ L+ +L EMDG E  +GI+V+AATNRP  +D AL+RPGRFD  + V 
Sbjct: 121 GAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVG 180

Query: 460 PPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISAT 519
            PD+  R +IL+VH R + +  D+D   IA  T  F+GA+L  L  EA + A R +    
Sbjct: 181 LPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGN--KR 238

Query: 520 AVRNRHFQTVKD 531
            V    F+  KD
Sbjct: 239 VVSMVEFEKAKD 250

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score =  171 bits (435), Expect = 2e-49
 Identities = 90/257 (35%), Positives = 136/257 (52%), Gaps = 29/257 (11%)

Query: 27  AVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP 86
           A E + EL+ + L   S+ QKLG K P+G+L+ GPPGTGKT L +A+  E       IS 
Sbjct: 20  AKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISG 78

Query: 87  HSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-------RREQD 139
               +  VG     +R+ F QA   A    P ++FIDEIDA+  +R          REQ 
Sbjct: 79  SDFVEMFVGVGASRVRDMFEQAKKAA----PCIIFIDEIDAVGRQRGAGLGGGHDEREQT 134

Query: 140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEER 199
           +   +Q+   MD  + ++     ++V+A+TNR D +DPAL R GRFD +V V +P    R
Sbjct: 135 L---NQMLVEMDGFEGNEG----IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGR 187

Query: 200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLS 259
            +ILK++ ++VPL  ++D   IA    G+ GADL  L  EA + A + +           
Sbjct: 188 EQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGNKRV-------- 239

Query: 260 VTMEDWRHA--RSVVGP 274
           V+M ++  A  + ++G 
Sbjct: 240 VSMVEFEKAKDKIMMGL 256

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score =  229 bits (585), Expect = 9e-71
 Identities = 47/280 (16%), Positives = 94/280 (33%), Gaps = 35/280 (12%)

Query: 291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA 350
            + G       + + V    K+        I       + G  G  K+   +        
Sbjct: 5   KLDGFYIAPAFMDKLVVHITKN--FLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGI 62

Query: 351 SFFSLSGAELYSMYVGESEALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTS 406
           +   +S  EL S   GE   L+R  ++ A    R      +F ++ D    + GG++   
Sbjct: 63  NPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQY- 121

Query: 407 ITVGERLLSTLLTE------------MDGLEQAKGILVLAATNRPHAIDAALMRPGRFDL 454
            TV  ++++  L              M   ++   + ++   N    + A L+R GR + 
Sbjct: 122 -TVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEK 180

Query: 455 VLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVA--- 511
             + P  +   R  +     R     D+V    + +  + F G  ++        V    
Sbjct: 181 FYWAPTRE--DRIGVCTGIFRT----DNVPAEDVVKIVDNFPGQSIDFFGALRARVYDDE 234

Query: 512 LREDISATAVRN------RHFQTVKDSLKPALTKEEIDSY 545
           +R+ +S T +          F       +P +T E++  Y
Sbjct: 235 VRKWVSGTGIEKIGDKLLNSFDGPPTFEQPKMTIEKLLEY 274

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score =  189 bits (481), Expect = 1e-55
 Identities = 48/291 (16%), Positives = 100/291 (34%), Gaps = 27/291 (9%)

Query: 29  EALRELITFPLLYSSQ-AQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-LTVISP 86
            A   +    +  +    +   +K P  L ++G  G GK+     V R+ G + + + + 
Sbjct: 11  IAPAFMDKLVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAG 70

Query: 87  HSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDV--RIAS 144
                 + GE  K +R+ + +A+     G    +FI+++DA   R     +  V  ++ +
Sbjct: 71  ELESG-NAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVN 129

Query: 145 QLFTLMDSNKP--------SKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTA 196
                +  N          +K     V ++ + N    +   L R GR +       PT 
Sbjct: 130 ATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW--APTR 187

Query: 197 EERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAG 256
           E+R  +     +      NV  E +    + + G  ++                     G
Sbjct: 188 EDRIGVCTGIFRT----DNVPAEDVVKIVDNFPGQSIDFFGALRARVYDDEVRKWVSGTG 243

Query: 257 VLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVE 307
           +  +  +                 T E PK+T E +    ++  + Q+ V+
Sbjct: 244 IEKIGDKLLNSFD--------GPPTFEQPKMTIEKLLEYGNMLVQEQENVK 286

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score =  227 bits (581), Expect = 3e-70
 Identities = 101/233 (43%), Positives = 145/233 (62%), Gaps = 1/233 (0%)

Query: 283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAK 342
           E PKVT++D+ G  + K++L++ VE+ +K+ + F  +G    +G LL GPPG  KT LA+
Sbjct: 33  EAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLAR 91

Query: 343 AAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGS 402
           A A  A   F + SG++   M+VG   A +R+ F+ A+  AP I+F DE D VG KRG  
Sbjct: 92  AVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSG 151

Query: 403 SSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPD 462
                   E+ L+ LL EMDG E+   I+V+AATNRP  +D AL+RPGRFD  + +  PD
Sbjct: 152 VGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPD 211

Query: 463 LEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRED 515
           ++ R +ILR+H R   + +DVDL  +A+ T  F GA+LE L  EA ++A RE 
Sbjct: 212 VKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG 264

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score =  173 bits (440), Expect = 8e-50
 Identities = 95/273 (34%), Positives = 139/273 (50%), Gaps = 29/273 (10%)

Query: 3   SKGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPP 62
           S+ R+++E  +    + A  G   A E L+E++ F L   S+  ++G + P+G+LL GPP
Sbjct: 26  SRARVLTEAPKVTFKDVA--GAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPP 82

Query: 63  GTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFI 122
           G GKT L RAV  E        S     +  VG     +R+ F  A  HA    P +VFI
Sbjct: 83  GVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHA----PCIVFI 138

Query: 123 DEIDALCPRRDH-------RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI 175
           DEIDA+  +R          REQ +   +QL   MD  +        +VV+A+TNR D +
Sbjct: 139 DEIDAVGRKRGSGVGGGNDEREQTL---NQLLVEMDGFEKDTA----IVVMAATNRPDIL 191

Query: 176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEA 235
           DPAL R GRFD ++ +  P  + R +IL+++ +  PL  +VDL  +A    G+VGADLE 
Sbjct: 192 DPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLEN 251

Query: 236 LCREATMSAVKRSSDANECAGVLSVTMEDWRHA 268
           L  EA + A +             +TM+D   A
Sbjct: 252 LLNEAALLAAREGRRK--------ITMKDLEEA 276

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A* Length = 268

 Score =  226 bits (579), Expect = 4e-70
 Identities = 98/259 (37%), Positives = 146/259 (56%), Gaps = 15/259 (5%)

Query: 280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTT 339
           +  E P V ++D+ G  + K+++ + V++ +K+   ++ LG    +G LL GPPG  KT 
Sbjct: 1   INAEKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTL 59

Query: 340 LAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR 399
           LAKA A  A   FFS+ G+    M+VG   + +R+ F+ A+  APSIIF DE D +G  R
Sbjct: 60  LAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSR 119

Query: 400 GGSSSTSITVG------ERLLSTLLTEMDGLEQAK-GILVLAATNRPHAIDAALMRPGRF 452
                    V       E+ L+ LL EMDG       ++VLAATNRP  +D ALMRPGRF
Sbjct: 120 AAGG-----VVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRF 174

Query: 453 DLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVAL 512
           D  + V  PD   R EIL+VH + +K+ +DV+L+ +A+ T    GA+L  +  EA ++A 
Sbjct: 175 DRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAG 234

Query: 513 REDISATAVRNRHFQTVKD 531
           R +     VR +H +   +
Sbjct: 235 RNN--QKEVRQQHLKEAVE 251

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A* Length = 268

 Score =  173 bits (440), Expect = 7e-50
 Identities = 90/258 (34%), Positives = 125/258 (48%), Gaps = 29/258 (11%)

Query: 27  AVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP 86
           A E + E++ F L Y  +   LG K P+G+LL GPPGTGKT L +AV  E       +  
Sbjct: 19  AKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGG 77

Query: 87  HSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR--------REQ 138
            S  +  VG     +R+ F  A   A    PS++FIDEIDA+   R           REQ
Sbjct: 78  SSFIEMFVGLGASRVRDLFETAKKQA----PSIIFIDEIDAIGKSRAAGGVVSGNDEREQ 133

Query: 139 DVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEE 198
            +   +QL   MD        V   +V+A+TNR + +DPAL R GRFD +V V  P    
Sbjct: 134 TL---NQLLAEMDGFGSENAPV---IVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNG 187

Query: 199 RFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVL 258
           R EILK++ K V L  +V+L+ +A    G  GADL  +  EA + A + +          
Sbjct: 188 RVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAGRNNQKE------- 240

Query: 259 SVTMEDWRHA--RSVVGP 274
            V  +  + A  R + G 
Sbjct: 241 -VRQQHLKEAVERGIAGL 257

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A* Length = 254

 Score =  226 bits (577), Expect = 5e-70
 Identities = 102/238 (42%), Positives = 146/238 (61%), Gaps = 1/238 (0%)

Query: 278 RGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSK 337
             V  E PKVT++D+ G  + K++L++ VE+ +K+ + F  +G    +G LL GPPG  K
Sbjct: 4   GSVLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGK 62

Query: 338 TTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA 397
           T LA+A A  A   F + SG++   M+VG   A +R+ F+ A+  AP I+F DE D VG 
Sbjct: 63  THLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGR 122

Query: 398 KRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLY 457
           KRG          E+ L+ LL EMDG E+   I+V+AATNRP  +D AL+RPGRFD  + 
Sbjct: 123 KRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIA 182

Query: 458 VPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRED 515
           +  PD++ R +ILR+H R   + +DVDL  +A+ T  F GA+LE L  EA ++A RE 
Sbjct: 183 IDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG 240

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A* Length = 254

 Score =  172 bits (437), Expect = 1e-49
 Identities = 92/273 (33%), Positives = 134/273 (49%), Gaps = 28/273 (10%)

Query: 3   SKGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPP 62
                +     K   ++ + G   A E L+E++ F L   S+  ++G + P+G+LL GPP
Sbjct: 1   GPLGSVLTEAPKVTFKD-VAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPP 58

Query: 63  GTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFI 122
           G GKT L RAV  E        S     +  VG     +R+ F  A  HA    P +VFI
Sbjct: 59  GVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHA----PCIVFI 114

Query: 123 DEIDALCPRRDH-------RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI 175
           DEIDA+  +R          REQ +   +QL   MD  +        +VV+A+TNR D +
Sbjct: 115 DEIDAVGRKRGSGVGGGNDEREQTL---NQLLVEMDGFEKDT----AIVVMAATNRPDIL 167

Query: 176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEA 235
           DPAL R GRFD ++ +  P  + R +IL+++ +  PL  +VDL  +A    G+VGADLE 
Sbjct: 168 DPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLEN 227

Query: 236 LCREATMSAVKRSSDANECAGVLSVTMEDWRHA 268
           L  EA + A +             +TM+D   A
Sbjct: 228 LLNEAALLAAREGRRK--------ITMKDLEEA 252

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E* Length = 476

 Score =  218 bits (559), Expect = 1e-64
 Identities = 104/253 (41%), Positives = 153/253 (60%), Gaps = 15/253 (5%)

Query: 285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAA 344
            +VT++D+GG  +  ++L++ VE+ +K  + F+R+G    +G LL GPPG  KT LA+A 
Sbjct: 11  KRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAV 69

Query: 345 AHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSS 404
           A  A   FF +SG++   ++VG   A +R+ F +A+  AP I+F DE D VG  RG    
Sbjct: 70  AGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAG-- 127

Query: 405 TSITVG------ERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYV 458
               +G      E+ L+ LL EMDG +  +GI+V+AATNRP  +D AL+RPGRFD  + V
Sbjct: 128 ----LGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVV 183

Query: 459 PPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISA 518
            PPD+  R +IL +HTRN  + +DV+L  IA+ T  F GA+LE L  EA ++A RE    
Sbjct: 184 DPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREG--R 241

Query: 519 TAVRNRHFQTVKD 531
             +  + F+   D
Sbjct: 242 DKITMKDFEEAID 254

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E* Length = 476

 Score =  164 bits (417), Expect = 1e-44
 Identities = 101/261 (38%), Positives = 142/261 (54%), Gaps = 37/261 (14%)

Query: 27  AVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP 86
           A+E L+E++ F L   S+  ++G + P+G+LL GPPGTGKT L RAV  E       IS 
Sbjct: 24  AIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISG 82

Query: 87  HSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR--------DHRREQ 138
               +  VG     +R+ F+QA +HA    P +VFIDEIDA+   R        D R EQ
Sbjct: 83  SDFVELFVGVGAARVRDLFAQAKAHA----PCIVFIDEIDAVGRHRGAGLGGGHDER-EQ 137

Query: 139 DVRIASQLFTLMD---SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPT 195
            +   +QL   MD   S +        ++V+A+TNR D +DPAL R GRFD ++ V  P 
Sbjct: 138 TL---NQLLVEMDGFDSKE-------GIIVMAATNRPDILDPALLRPGRFDKKIVVDPPD 187

Query: 196 AEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECA 255
              R +IL+++T+  PL  +V+LE IA    G+VGADLE L  EA + A +   D     
Sbjct: 188 MLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGRDK---- 243

Query: 256 GVLSVTMEDWRHA--RSVVGP 274
               +TM+D+  A  R + GP
Sbjct: 244 ----ITMKDFEEAIDRVIAGP 260

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus} Length = 499

 Score =  219 bits (560), Expect = 1e-64
 Identities = 104/255 (40%), Positives = 151/255 (59%), Gaps = 15/255 (5%)

Query: 283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAK 342
           E PKVT++D+ G  + K++L++ VE+ +K+ + F  +G    +G LL GPPG  KT LA+
Sbjct: 24  EAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLAR 82

Query: 343 AAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGS 402
           A A  A   F + SG++   M+VG   A +R+ F+ A+  AP I+F DE D VG KRG  
Sbjct: 83  AVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSG 142

Query: 403 SSTSITVG------ERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVL 456
                 VG      E+ L+ LL EMDG E+   I+V+AATNRP  +D AL+RPGRFD  +
Sbjct: 143 ------VGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQI 196

Query: 457 YVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDI 516
            +  PD++ R +ILR+H R   + +DVDL  +A+ T  F GA+LE L  EA ++A RE  
Sbjct: 197 AIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG- 255

Query: 517 SATAVRNRHFQTVKD 531
               +  +  +   D
Sbjct: 256 -RRKITMKDLEEAAD 269

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus} Length = 499

 Score =  162 bits (413), Expect = 9e-44
 Identities = 97/284 (34%), Positives = 143/284 (50%), Gaps = 37/284 (13%)

Query: 3   SKGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPP 62
           S+ R+++E  +    + A  G   A E L+E++ F L   S+  ++G + P+G+LL GPP
Sbjct: 17  SRARVLTEAPKVTFKDVA--GAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPP 73

Query: 63  GTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFI 122
           G GKT L RAV  E        S     +  VG     +R+ F  A  HA    P +VFI
Sbjct: 74  GVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHA----PCIVFI 129

Query: 123 DEIDALCPRRDH-------RREQDVRIASQLFTLMD---SNKPSKTSVPHVVVVASTNRV 172
           DEIDA+  +R          REQ +   +QL   MD    +         +VV+A+TNR 
Sbjct: 130 DEIDAVGRKRGSGVGGGNDEREQTL---NQLLVEMDGFEKDT-------AIVVMAATNRP 179

Query: 173 DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGAD 232
           D +DPAL R GRFD ++ +  P  + R +IL+++ +  PL  +VDL  +A    G+VGAD
Sbjct: 180 DILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 239

Query: 233 LEALCREATMSAVKRSSDANECAGVLSVTMEDWRHA--RSVVGP 274
           LE L  EA + A +             +TM+D   A  R ++ P
Sbjct: 240 LENLLNEAALLAAREGRRK--------ITMKDLEEAADRVMMLP 275

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A* Length = 272

 Score =  196 bits (499), Expect = 2e-58
 Identities = 40/257 (15%), Positives = 89/257 (34%), Gaps = 20/257 (7%)

Query: 258 LSVTM-EDWRHARSVVGPSITRGVTVE-IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTA 315
           +  +       +   + P+   G   E         I    D   ++    E  ++ +  
Sbjct: 1   MRGSHHHHHHGSTMDIKPA--FGTNQEDYASYIMNGIIKWGDPVTRVLDDGELLVQQTKN 58

Query: 316 FSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEA-LLRN 374
             R   +P+   LL GPP   KT LA   A  +   F  +   +    +   ++   ++ 
Sbjct: 59  SDR---TPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKK 115

Query: 375 TFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-QAKGILVL 433
            F  A  +  S +  D+ + +          S      +L  LL  +     Q + +L++
Sbjct: 116 IFDDAYKSQLSCVVVDDIERLLDYVPIGPRFS----NLVLQALLVLLKKAPPQGRKLLII 171

Query: 434 AATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETE 493
             T+R   +   +     F   ++V  P++    ++L           D +  +IA++ +
Sbjct: 172 GTTSRKDVLQ-EMEMLNAFSTTIHV--PNIATGEQLLEALELLGNF-KDKERTTIAQQVK 227

Query: 494 ---LFTGAELEGLCREA 507
              ++ G +   +  E 
Sbjct: 228 GKKVWIGIKKLLMLIEM 244

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A* Length = 272

 Score =  158 bits (401), Expect = 2e-44
 Identities = 37/234 (15%), Positives = 80/234 (34%), Gaps = 20/234 (8%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           I      V  + +     +  +  + +        +LL GPP +GKT+L   +  E    
Sbjct: 35  IIKWGDPVTRVLDDGELLVQQTKNSDRTP---LVSVLLEGPPHSGKTALAAKIAEESNFP 91

Query: 81  -LTVISPHSVHKAHVGESE-KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQ 138
            + + SP  +       ++ +A+++ F  A         S V +D+I+ L          
Sbjct: 92  FIKICSPDKMIG-FSETAKCQAMKKIFDDAYKSQ----LSCVVVDDIERLLDYVPIGPRF 146

Query: 139 DVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEE 198
              +   L  L+    P       ++++ +T+R D +   +     F   +   VP    
Sbjct: 147 SNLVLQALLVLLKKAPPQGR---KLLIIGTTSRKDVLQ-EMEMLNAFSTTIH--VPNIAT 200

Query: 199 RFEILKLYTKKVPLDANVDLEAIATSCNG---YVGADLEALCREATMSAVKRSS 249
             ++L+          + +   IA    G   ++G     +  E ++       
Sbjct: 201 GEQLLEALELLGNFK-DKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYR 253

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens} Length = 86

 Score = 97.2 bits (243), Expect = 1e-24
 Identities = 28/75 (37%), Positives = 43/75 (57%), Gaps = 2/75 (2%)

Query: 457 YVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDI 516
           +   P+ EAR +IL++H+R M +   ++LR IAE     +GAE++G+C EAG+ ALRE  
Sbjct: 7   HHSHPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER- 65

Query: 517 SATAVRNRHFQTVKD 531
               V    F+    
Sbjct: 66  -RVHVTQEDFEMAVA 79

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens} Length = 86

 Score = 81.4 bits (202), Expect = 3e-19
 Identities = 25/84 (29%), Positives = 42/84 (50%), Gaps = 8/84 (9%)

Query: 189 VEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRS 248
              + P  E R +ILK++++K+ L   ++L  IA    G  GA+++ +C EA M A++  
Sbjct: 6   HHHSHPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER 65

Query: 249 SDANECAGVLSVTMEDWRHARSVV 272
                      VT ED+  A + V
Sbjct: 66  RV--------HVTQEDFEMAVAKV 81

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens} Length = 78

 Score = 94.9 bits (237), Expect = 4e-24
 Identities = 30/73 (41%), Positives = 44/73 (60%), Gaps = 2/73 (2%)

Query: 459 PPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISA 518
           PPP+ EAR +IL++H+R M +   ++LR IAE     +GAE++G+C EAG+ ALRE    
Sbjct: 1   PPPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER--R 58

Query: 519 TAVRNRHFQTVKD 531
             V    F+    
Sbjct: 59  VHVTQEDFEMAVA 71

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens} Length = 78

 Score = 77.1 bits (191), Expect = 9e-18
 Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 8/79 (10%)

Query: 194 PTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE 253
           P  E R +ILK++++K+ L   ++L  IA    G  GA+++ +C EA M A++       
Sbjct: 3   PNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRV--- 59

Query: 254 CAGVLSVTMEDWRHARSVV 272
                 VT ED+  A + V
Sbjct: 60  -----HVTQEDFEMAVAKV 73

>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B* 2dvw_B* Length = 83

 Score = 87.0 bits (216), Expect = 4e-21
 Identities = 19/84 (22%), Positives = 41/84 (48%), Gaps = 3/84 (3%)

Query: 462 DLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAV 521
           D   +  I    T  M + ++VDL       +  +GA++  +C+E+G++A+RE+     V
Sbjct: 2   DRRQKRLIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVREN--RYIV 59

Query: 522 RNRHFQTVKDSLKPALTKEEIDSY 545
             + F+    ++     ++E + Y
Sbjct: 60  LAKDFEKAYKTVIKKD-EQEHEFY 82

>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B* 2dvw_B* Length = 83

 Score = 70.8 bits (174), Expect = 2e-15
 Identities = 20/79 (25%), Positives = 33/79 (41%), Gaps = 8/79 (10%)

Query: 197 EERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAG 256
            ++  I    T K+ L   VDLE      +   GAD+ ++C+E+ M AV+ +        
Sbjct: 4   RQKRLIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVRENRYI----- 58

Query: 257 VLSVTMEDWRHARSVVGPS 275
              V  +D+  A   V   
Sbjct: 59  ---VLAKDFEKAYKTVIKK 74

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 90.3 bits (223), Expect = 7e-19
 Identities = 60/440 (13%), Positives = 121/440 (27%), Gaps = 156/440 (35%)

Query: 173 DAIDPALRRSGRFDAEVE--VTVPTAEER----FEILKLYTKKV-------PLDANVD-- 217
           D     L        E++  +    A       F  L    +++        L  N    
Sbjct: 40  DMPKSILS-----KEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFL 94

Query: 218 LEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSIT 277
           +  I T           ++     +    R                 +   +     +++
Sbjct: 95  MSPIKTEQRQ------PSMMTRMYIEQRDRL----------------YNDNQVFAKYNVS 132

Query: 278 RGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSK 337
           R     +             L++ L +                + P +  L+ G  G  K
Sbjct: 133 R-----LQPYL--------KLRQALLE----------------LRPAKNVLIDGVLGSGK 163

Query: 338 TTLAKAAA--HAAEASFFSLSGAELYSMYVG---ESEALLRNTFQRARLAAPSIIFFDEA 392
           T +A      +  +         +++ + +      E +L    +      P+  +   +
Sbjct: 164 TWVALDVCLSYKVQCKMDF----KIFWLNLKNCNSPETVLEMLQKLLYQIDPN--WTSRS 217

Query: 393 DVVGAKRGGSSSTSITVGE--RLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPG 450
           D        SS+  + +      L  LL           +LVL       A +A      
Sbjct: 218 D-------HSSNIKLRIHSIQAELRRLLKSKPY---ENCLLVLLNVQNAKAWNA------ 261

Query: 451 RFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDL-----RSIAEETELFTGAELEGLC- 504
            F         +L  +  IL + TR  +V D +        S+   +   T  E++ L  
Sbjct: 262 -F---------NLSCK--IL-LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL 308

Query: 505 -----------REA--------GIVA--LREDISATAVRNRHFQTVK------------D 531
                      RE          I+A  +R+ ++       +++ V             +
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA----TWDNWKHVNCDKLTTIIESSLN 364

Query: 532 SLKPALTKEEIDSYSSFMKS 551
            L+PA  ++  D  S F  S
Sbjct: 365 VLEPAEYRKMFDRLSVFPPS 384

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 68.3 bits (166), Expect = 4e-12
 Identities = 79/530 (14%), Positives = 152/530 (28%), Gaps = 163/530 (30%)

Query: 28  VEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH 87
              LR+      L         L+  + +L+ G  G+GKT +   V       +      
Sbjct: 137 YLKLRQA-----LLE-------LRPAKNVLIDGVLGSGKTWVALDVCLSYK--VQCKMDF 182

Query: 88  SVHKAHVGE--SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIAS- 144
            +   ++    S + + E   Q   + +                 R DH     +RI S 
Sbjct: 183 KIFWLNLKNCNSPETVLEML-QKLLYQIDPN-----------WTSRSDHSSNIKLRIHSI 230

Query: 145 --QLFTLMDSNKPSKTSVPHVVV--VASTNRVDAIDPA---L---RRSGRFDA-----EV 189
             +L  L+  +KP +  +  +V+  V +    +A + +   L   R     D        
Sbjct: 231 QAELRRLL-KSKPYENCL--LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTT 287

Query: 190 EVTVPTAEERF---EILKLYTKKVPLDANVDLEAIATSCN----GYVGADL-EALCR--- 238
            +++          E+  L  K +      DL     + N      +   + + L     
Sbjct: 288 HISLDHHSMTLTPDEVKSLLLKYLDCRPQ-DLPREVLTTNPRRLSIIAESIRDGLATWDN 346

Query: 239 ------EATMSAVKRS------SDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPK 286
                 +   + ++ S      ++  +    LSV                       IP 
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS-----------------AHIPT 389

Query: 287 VT----WEDIGG--LRDLKKKLQQ---AVEWPIK-----HSTAFSRLGISPVRGALLHGP 332
           +     W D+    +  +  KL +     + P +      S     L +       LH  
Sbjct: 390 ILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL-ELKVKLENEYALH-- 446

Query: 333 PGCSKTTLAKAAAHAAEAS-----------FFSLSGAELYSMYVGESEALLRNTFQRARL 381
               ++ +          S           F+S  G  L ++   E   L R  F   R 
Sbjct: 447 ----RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFR- 501

Query: 382 AAPSIIFFDEADV--VGAKRGGSSSTSITVG----------------ERLLSTLLTEMDG 423
                  F E  +         S S   T+                 ERL++ +   +D 
Sbjct: 502 -------FLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAI---LDF 551

Query: 424 LEQAKGILVLAATNRPHA--IDAALMRPGRFDLVLYVPPPDLEARHEILR 471
           L + +  L+ +     +   +  ALM        ++      EA  ++ R
Sbjct: 552 LPKIEENLICS----KYTDLLRIALMAEDEA---IF-----EEAHKQVQR 589

>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} PDB: 2dzo_B Length = 82

 Score = 79.3 bits (196), Expect = 2e-18
 Identities = 17/81 (20%), Positives = 35/81 (43%), Gaps = 3/81 (3%)

Query: 466 RHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRH 525
           R  I       M +  + DL S+    +  +GA +  + +EAG+ A+R++     +    
Sbjct: 3   RRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKN--RYVILQSD 60

Query: 526 FQTVKDS-LKPALTKEEIDSY 545
            +    + +K   T ++ D Y
Sbjct: 61  LEEAYATQVKTDNTVDKFDFY 81

>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} PDB: 2dzo_B Length = 82

 Score = 68.2 bits (167), Expect = 1e-14
 Identities = 16/75 (21%), Positives = 30/75 (40%), Gaps = 8/75 (10%)

Query: 198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGV 257
           ER  I      K+ L    DL+++    +   GA + A+ +EA + AV+++         
Sbjct: 2   ERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKNRYV------ 55

Query: 258 LSVTMEDWRHARSVV 272
             +   D   A +  
Sbjct: 56  --ILQSDLEEAYATQ 68

>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone, chaperone-protein binding complex; HET: DNA; 3.80A {Saccharomyces cerevisiae} PDB: 4a3v_B* Length = 88

 Score = 77.6 bits (192), Expect = 8e-18
 Identities = 21/54 (38%), Positives = 30/54 (55%)

Query: 462 DLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRED 515
           DLE R  I R+H+++M V   +    I+      TGAEL  +C EAG+ A+R  
Sbjct: 2   DLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRAR 55

>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone, chaperone-protein binding complex; HET: DNA; 3.80A {Saccharomyces cerevisiae} PDB: 4a3v_B* Length = 88

 Score = 69.2 bits (170), Expect = 8e-15
 Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 8/76 (10%)

Query: 197 EERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAG 256
           E R  I ++++K + ++  +  E I+  C    GA+L ++C EA M A++          
Sbjct: 4   EGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKV----- 58

Query: 257 VLSVTMEDWRHARSVV 272
               T +D+  A   V
Sbjct: 59  ---ATEKDFLKAVDKV 71

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Length = 309

 Score = 78.6 bits (193), Expect = 4e-16
 Identities = 40/223 (17%), Positives = 76/223 (34%), Gaps = 26/223 (11%)

Query: 283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGI---SPVRGALLHGPPGCSKTT 339
           E+ +    ++ GL+ +K ++++     +    A  +LG+   +P       G PG  KTT
Sbjct: 24  EVLEELDRELIGLKPVKDRIRETAAL-LLVERARQKLGLAHETPTLHMSFTGNPGTGKTT 82

Query: 340 LAKAAAHA-------AEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEA 392
           +A   A          +    S++  +L   Y+G +    +   +RA      ++F DEA
Sbjct: 83  VALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAM---GGVLFIDEA 139

Query: 393 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAAL-MRPG- 450
             +              G+  +  LL  M   E  +  LV+        ++      PG 
Sbjct: 140 YYLYRPDNER-----DYGQEAIEILLQVM---ENNRDDLVVILAGYADRMENFFQSNPGF 191

Query: 451 --RFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEE 491
             R    +  P    E   EI      +       +  +    
Sbjct: 192 RSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRA 234

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Length = 309

 Score = 76.3 bits (187), Expect = 2e-15
 Identities = 55/267 (20%), Positives = 90/267 (33%), Gaps = 42/267 (15%)

Query: 29  EALRELITFPLLYSSQAQKLGLKWP---RGLLLYGPPGTGKTSLVRAVVREC-------G 78
           + +RE     LL     QKLGL        +   G PGTGKT++   +            
Sbjct: 41  DRIRETAAL-LLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRK 99

Query: 79  AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQ 138
            HL  ++   +   ++G +    +E   +A          V+FIDE   L  R D+ R+ 
Sbjct: 100 GHLVSVTRDDLVGQYIGHTAPKTKEVLKRA-------MGGVLFIDEAYYLY-RPDNERDY 151

Query: 139 DVRIASQLFTLMDSNKPSKTSVPHVVVVAS----TNRVDAIDPALRRSGRFDAEVEVTVP 194
                  L  +M++N+        VV++A            +P  R   R    +E    
Sbjct: 152 GQEAIEILLQVMENNRDD-----LVVILAGYADRMENFFQSNPGFRS--RIAHHIEFPDY 204

Query: 195 TAEERFEILKLYTKKVPLDANVDLEAIATSCNGYV--------GADLEALCREATMSAVK 246
           + EE FEI              + E    +  G             +      A +    
Sbjct: 205 SDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRRNQPHFANARSIRNALDRARLRQAN 264

Query: 247 R----SSDANECAGVLSVTMEDWRHAR 269
           R    SS   +   + ++  ED R +R
Sbjct: 265 RLFTASSGPLDARALSTIAEEDIRASR 291

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A* Length = 456

 Score = 75.4 bits (185), Expect = 1e-14
 Identities = 48/240 (20%), Positives = 86/240 (35%), Gaps = 39/240 (16%)

Query: 23  GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA--H 80
           G   A EA   ++        +  K      R +LL GPPGTGKT+L  A+ +E G+   
Sbjct: 41  GQENAREACGVIV--------ELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVP 92

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD------- 133
              +    V+   + ++E  L E F +A    +  +   V+  E+  L P          
Sbjct: 93  FCPMVGSEVYSTEIKKTE-VLMENFRRAIGLRIK-ETKEVYEGEVTELTPCETENPMGGY 150

Query: 134 -------------HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALR 180
                         +  + +++   +F  +   +     V  + + A++  V        
Sbjct: 151 GKTISHVIIGLKTAKGTKQLKLDPSIFESLQKERVEAGDV--IYIEANSGAVKRQGRCDT 208

Query: 181 RSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREA 240
            +  FD E E  VP  +      K   + V L    DL+       G  G D+ ++  + 
Sbjct: 209 YATEFDLEAEEYVPLPKGDVHKKKEIIQDVTLH---DLDVANARPQG--GQDILSMMGQL 263

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A* Length = 456

 Score = 72.7 bits (178), Expect = 1e-13
 Identities = 44/234 (18%), Positives = 81/234 (34%), Gaps = 41/234 (17%)

Query: 271 VVGPSITRGVTVE---IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGA 327
           +   S  +G+ ++   + K     + G  + ++     VE          +      R  
Sbjct: 15  IASHSHVKGLGLDESGLAKQAASGLVGQENAREACGVIVE--------LIKSKKMAGRAV 66

Query: 328 LLHGPPGCSKTTLAKAAAHA--AEASFFSLSGAELYSMYVGESEALLRNTFQRA---RLA 382
           LL GPPG  KT LA A A    ++  F  + G+E+YS  + ++E +L   F+RA   R+ 
Sbjct: 67  LLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTE-VLMENFRRAIGLRIK 125

Query: 383 APSIIFFDEA--------------------DVVGAKRGGSSSTSITVGERLLSTLLTEMD 422
               ++  E                      V+   +    +  + +   +  +L  E  
Sbjct: 126 ETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKE-- 183

Query: 423 GLEQAKGILVLAATNRPHAIDAALMRPGRFDLVL--YVPPPDLEARHEILRVHT 474
            +E    I + A +               FDL    YVP P  +   +   +  
Sbjct: 184 RVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVHKKKEIIQD 237

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Length = 386

 Score = 62.8 bits (152), Expect = 1e-10
 Identities = 45/250 (18%), Positives = 84/250 (33%), Gaps = 36/250 (14%)

Query: 53  PRGLLLYGPPGTGKTSLVRAVVRECGAH------------LTVISPHSVHKA-------H 93
           P  + +YG  GTGKT++V+ V+ +                  + +P+ V           
Sbjct: 45  PNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVK 104

Query: 94  VGESEKALREAFSQASSHALS-GKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS 152
           V  +  ++ E + +        G   V+ +DEIDA   + +     D+    +L  +   
Sbjct: 105 VPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYN----DDI--LYKLSRI--- 155

Query: 153 NKPSKTSVPHVVVVASTNRVDAIDPALRR-SGRFDAEVEVTVP-TAEERFEILKLYTKKV 210
              S+ +   +  +  TN V  +D    R       E  +  P  AEE  +IL    +  
Sbjct: 156 --NSEVNKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMA 213

Query: 211 PLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARS 270
                +    I   C      +     R   +  ++ S +  E      V  E    A+ 
Sbjct: 214 FKPGVLPDNVIKL-CAALAAREHGDARR--ALDLLRVSGEIAERMKDTKVKEEYVYMAKE 270

Query: 271 VVGPSITRGV 280
            +     R +
Sbjct: 271 EIERDRVRDI 280

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 62.6 bits (153), Expect = 1e-10
 Identities = 28/83 (33%), Positives = 44/83 (53%), Gaps = 15/83 (18%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSG 115
           ++L+GPPGTGKT+L   + R   A +  IS      A V    K +REA  +A  +  +G
Sbjct: 53  MILWGPPGTGKTTLAEVIARYANADVERIS------A-VTSGVKEIREAIERARQNRNAG 105

Query: 116 KPSVVFIDEI--------DALCP 130
           + +++F+DE+        DA  P
Sbjct: 106 RRTILFVDEVHRFNKSQQDAFLP 128

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 46.0 bits (110), Expect = 2e-05
 Identities = 25/72 (34%), Positives = 32/72 (44%), Gaps = 19/72 (26%)

Query: 328 LLHGPPGCSKTTLAKAAAHAAEASFFSLS----GAELYSMYVGESEALLRNTFQRARLAA 383
           +L GPPG  KTTLA+  A  A A    +S    G       V E    +R   +RAR   
Sbjct: 54  ILWGPPGTGKTTLAEVIARYANADVERISAVTSG-------VKE----IREAIERARQNR 102

Query: 384 ----PSIIFFDE 391
                +I+F DE
Sbjct: 103 NAGRRTILFVDE 114

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20 Length = 516

 Score = 57.6 bits (139), Expect = 6e-09
 Identities = 31/133 (23%), Positives = 52/133 (39%), Gaps = 20/133 (15%)

Query: 13  EKWKAE--EAIGGNRAAVEALRELIT----FPLLYSSQAQKLGLKWPRGLLLYGPPGTGK 66
            K+     + + GN+ +V  L+  +             A K G    R  +LYGPPG GK
Sbjct: 31  VKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGK 90

Query: 67  TSLVRAVVRECGAHLTVI--------SPHSVHKAHVGE---SEKALREAFSQASSHALSG 115
           T+    V +E G    ++        S   +  A V     +   +        +  L+G
Sbjct: 91  TTAAHLVAQELG--YDILEQNASDVRSKTLL-NAGVKNALDNMSVVGYFKHNEEAQNLNG 147

Query: 116 KPSVVFIDEIDAL 128
           K  V+ +DE+D +
Sbjct: 148 KHFVIIMDEVDGM 160

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20 Length = 516

 Score = 49.9 bits (119), Expect = 2e-06
 Identities = 45/236 (19%), Positives = 71/236 (30%), Gaps = 55/236 (23%)

Query: 285 PKVTWEDIGGLRDLKKKLQQAVE-WPIKHSTAFSRLGISP---VRGALLHGPPGCSKTTL 340
           P    + + G +    KL+  +  W      +F   G       R A+L+GPPG  KTT 
Sbjct: 35  PT-NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTA 93

Query: 341 AKAAAHAA-----E--AS------------FFSLSGAELYSMYVGESEALLRNTFQRARL 381
           A   A        E  AS              +L    +   +    EA   N       
Sbjct: 94  AHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLN------- 146

Query: 382 AAPSIIFFDEAD-VVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH 440
               +I  DE D + G  RGG                        +    L+L    R  
Sbjct: 147 GKHFVIIMDEVDGMSGGDRGGVGQL---------------AQFCRKTSTPLILICNERNL 191

Query: 441 AIDAALMRP--GRFDLVLYVPPPDLEARHEILRVHTR-NMKVGDDVDLRSIAEETE 493
                 MRP       + +  P     +  ++ +  R   K+  +V +  + + T 
Sbjct: 192 PK----MRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNV-IDRLIQTTR 242

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20 Length = 389

 Score = 56.7 bits (136), Expect = 1e-08
 Identities = 42/260 (16%), Positives = 75/260 (28%), Gaps = 41/260 (15%)

Query: 53  PRGLLLYGPPGTGKTSLVRAVVRE-------------CGAHLT-------VISPHSVHKA 92
                L G PGTGKT  +R +                   +         +    ++   
Sbjct: 44  YPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFP 103

Query: 93  HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS 152
             G S         +            + +D+   L P             S    L   
Sbjct: 104 RRGLSRDEFLALLVEHLRE--RDLYMFLVLDDAFNLAPDIL----------STFIRLGQE 151

Query: 153 NKPSKTSVPHVVVVASTNRV-DAIDPALRRSGRFDAEVEVTVP-TAEERFEILKLYTKKV 210
                     +V+V   + V + +DP+ R        V    P T ++ F+IL    K  
Sbjct: 152 ADKLGAFRIALVIVGHNDAVLNNLDPSTRG--IMGKYVIRFSPYTKDQIFDILLDRAKAG 209

Query: 211 PLDANVDLEAI----ATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWR 266
             + +   + +      +             R A +  + RS+ A +  G   +  ED R
Sbjct: 210 LAEGSYSEDILQMIADITGAQTPLDTNRGDARLA-IDILYRSAYAAQQNGRKHIAPEDVR 268

Query: 267 HARSVVGPSITRGVTVEIPK 286
            +   V   I+  V + +P 
Sbjct: 269 KSSKEVLFGISEEVLIGLPL 288

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Length = 384

 Score = 56.3 bits (135), Expect = 1e-08
 Identities = 37/260 (14%), Positives = 77/260 (29%), Gaps = 46/260 (17%)

Query: 53  PRGLLLYGPPGTGKTSLVRAVVRECG--------------AHLTVISPHSVHKAHVGE-- 96
               L  G  GTGKT + + +  E                A++         +A +    
Sbjct: 45  KFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLA 104

Query: 97  ----SEKALREAFSQASS-----HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLF 147
                    +   +         +      +++++DE+D L  RR       V     L+
Sbjct: 105 GKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGG---DIV-----LY 156

Query: 148 TLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRR-SGRFDAEVEVTVPTAEERFEILKLY 206
            L+ S+        ++ V+  +N ++  D    R        V      AE+   IL  Y
Sbjct: 157 QLLRSD-------ANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKY 209

Query: 207 TKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWR 266
            +   +    D E ++         +     +   ++ + R++      G+  +  E   
Sbjct: 210 AEYGLIKGTYDDEILSY-IAAISAKEHGDARK--AVNLLFRAAQLASGGGI--IRKEHVD 264

Query: 267 HARSVVGPSITRGVTVEIPK 286
            A               +P 
Sbjct: 265 KAIVDYEQERLIEAVKALPF 284

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A* Length = 412

 Score = 51.8 bits (123), Expect = 4e-07
 Identities = 31/248 (12%), Positives = 72/248 (29%), Gaps = 48/248 (19%)

Query: 60  GPPGTGKTSLVRAVVRE------------CGAHLTVISPHSVHKAHVGESEKALREAFSQ 107
           G  G GKT+L +  V+               A++   +  +++        +       +
Sbjct: 59  GRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVR 118

Query: 108 ASSHA-----------LSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS 156
            +              +     +V +DE  ++                 L  + +   PS
Sbjct: 119 GAPALDILKALVDNLYVENHYLLVILDEFQSML----SSPRIAAEDLYTLLRVHE-EIPS 173

Query: 157 KTSVPHVVVVASTNRVDAIDPAL----RRSGRFDAEVEVTVPTAEERFEILKLYTKKVPL 212
           +  V  +  +   + V A+        +   +   ++ +    + E + IL+   +    
Sbjct: 174 RDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLR 233

Query: 213 DANVDLEAI------ATSCNGYVGADLEAL--CREATMSAVKRSSDANECAGVLSVTMED 264
           D   +   +           G  G+   A+   + A   A     D        S++ + 
Sbjct: 234 DTVWEPRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRD--------SLSEDL 285

Query: 265 WRHARSVV 272
            R A S  
Sbjct: 286 VRKAVSEN 293

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix} Length = 387

 Score = 49.8 bits (118), Expect = 1e-06
 Identities = 51/257 (19%), Positives = 85/257 (33%), Gaps = 41/257 (15%)

Query: 53  PRGLLLYGPPGTGKTSLVRAVVRECGAHL---------------TVISPHSVHKA----- 92
           P   LLYG  GTGKT++ R V+R   A                    +P+ V  A     
Sbjct: 44  PSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAV 103

Query: 93  --HVGESEKALREAFSQASSHALS-GKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL 149
              V  +  ++ E + +            ++ +DEID L  R      QD+    ++  +
Sbjct: 104 GVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGG---QDLLY--RITRI 158

Query: 150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRR-SGRFDAEVEVTVP-TAEERFEILKLYT 207
                        V +V  TN +  ++    R          V  P TA +  +IL+   
Sbjct: 159 NQ----ELGDRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRA 214

Query: 208 KKVPLDANVDLEAIATSCNGYVGADLEA------LCREATMSAVKRSSDANECAGVLSVT 261
           ++      +D + +   C      +         L R A   A +R  +      V S  
Sbjct: 215 EEAFNPGVLDPDVVPL-CAALAAREHGDARRALDLLRVAGEIAERRREERVRREHVYSAR 273

Query: 262 MEDWRHARSVVGPSITR 278
            E  R   S V  ++  
Sbjct: 274 AEIERDRVSEVVRTLPL 290

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A* Length = 180

 Score = 45.4 bits (108), Expect = 1e-05
 Identities = 23/140 (16%), Positives = 43/140 (30%), Gaps = 20/140 (14%)

Query: 24  NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV 83
           N +   AL  +  F             +  +GL   G PG GKT L  A ++        
Sbjct: 16  NVSQNRALLTIRVF-------VHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEK--- 65

Query: 84  ISPHSVHKAHVGESEKALREAFSQASSHALSG---KPSVVFIDEIDALCPRRDHRREQ-- 138
                 +     +    L+    +              V+ +D++ +     D +RE   
Sbjct: 66  -KGIRGYFFDTKDLIFRLKHLMDEGKDTKFLKTVLNSPVLVLDDLGSE-RLSDWQRELIS 123

Query: 139 ---DVRIASQLFTLMDSNKP 155
                R  +   T++ +N  
Sbjct: 124 YIITYRYNNLKSTIITTNYS 143

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus} Length = 226

 Score = 45.7 bits (109), Expect = 2e-05
 Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 17/82 (20%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE---SE----KALREAFSQ- 107
           LL  GPPGTGKT+   A+ R+              + +  E   S+      +R    + 
Sbjct: 41  LLFSGPPGTGKTATAIALARDLFG--------ENWRDNFIEMNASDERGIDVVRHKIKEF 92

Query: 108 ASSHALSGKPS-VVFIDEIDAL 128
           A +  + G P  ++F+DE DAL
Sbjct: 93  ARTAPIGGAPFKIIFLDEADAL 114

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3} Length = 308

 Score = 45.2 bits (107), Expect = 3e-05
 Identities = 31/144 (21%), Positives = 51/144 (35%), Gaps = 23/144 (15%)

Query: 24  NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV 83
           N + +EA   ++ F        ++      +GL LYG  G GK+ L+ A+  E       
Sbjct: 130 NASRMEAFSAILDF-------VEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEK--- 179

Query: 84  ISPHSVHKAHVGESEKALREAFSQASS----HALSGKPSVVFIDEIDALCPRRDHRREQ- 138
               S    H       ++ A S  S      A+     V+ +D+I A        R++ 
Sbjct: 180 -KGVSTTLLHFPSFAIDVKNAISNGSVKEEIDAVK-NVPVLILDDIGAE-QATSWVRDEV 236

Query: 139 -----DVRIASQLFTLMDSNKPSK 157
                  R+  +L T   SN    
Sbjct: 237 LQVILQYRMLEELPTFFTSNYSFA 260

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A Length = 319

 Score = 45.4 bits (108), Expect = 3e-05
 Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 17/82 (20%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE---SE----KALREAFSQ- 107
           LL  GPPGTGKT+   A+ R+              + +  E   S+      +R    + 
Sbjct: 41  LLFSGPPGTGKTATAIALARDLFG--------ENWRDNFIEMNASDERGIDVVRHKIKEF 92

Query: 108 ASSHALSGKPS-VVFIDEIDAL 128
           A +  + G P  ++F+DE DAL
Sbjct: 93  ARTAPIGGAPFKIIFLDEADAL 114

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae} Length = 318

 Score = 45.3 bits (106), Expect = 3e-05
 Identities = 20/195 (10%), Positives = 47/195 (24%), Gaps = 50/195 (25%)

Query: 40  LYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV----- 94
           ++      L     +   +     + K  LV  V+ E                H+     
Sbjct: 32  IFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALEL 91

Query: 95  ---------------------GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD 133
                                  S +AL    +         + +++ I   + L     
Sbjct: 92  AGMDALYEKIWFAISKENLCGDISLEALNFYITNVPKA--KKRKTLILIQNPENLL---- 145

Query: 134 HRREQDVRIASQLFTLMD--SNKPSKTSVPHVVVVASTNRVDAIDPAL---RRSGRFDAE 188
               + +     L       S+K SK     + ++        I   +           E
Sbjct: 146 ---SEKI-----LQYFEKWISSKNSK-----LSIICVGGHNVTIREQINIMPSLKAHFTE 192

Query: 189 VEVTVPTAEERFEIL 203
           +++      E  +++
Sbjct: 193 IKLNKVDKNELQQMI 207

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20 Length = 327

 Score = 45.0 bits (107), Expect = 4e-05
 Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 17/82 (20%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE---SE----KALREAFSQ- 107
           LL  GPPG GKT+   A+ RE              + +  E   S+      +RE   + 
Sbjct: 49  LLFAGPPGVGKTTAALALARELF--------GENWRHNFLELNASDERGINVIREKVKEF 100

Query: 108 ASSHALSGKPS-VVFIDEIDAL 128
           A +  + G    ++F+DE DAL
Sbjct: 101 ARTKPIGGASFKIIFLDEADAL 122

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi} Length = 350

 Score = 44.3 bits (104), Expect = 7e-05
 Identities = 38/220 (17%), Positives = 63/220 (28%), Gaps = 46/220 (20%)

Query: 50  LKWPRGLLLYGPPGTGKTSLVRAVVRE--------------------------------- 76
           L+     LL G    GK+SL+RA + E                                 
Sbjct: 28  LENYPLTLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIKELQSTISP 87

Query: 77  -CGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR 135
                       ++    +   + +LRE F + +         +V  DE   L       
Sbjct: 88  FQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYL------- 140

Query: 136 REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRS----GRFDAEVEV 191
           R    R   +L  L      S  ++  ++  +    +              GR   EV V
Sbjct: 141 RFYGSRGGKELLALFAYAYDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLV 200

Query: 192 TVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVG 230
                +   E LK   ++V LD    ++E      +G  G
Sbjct: 201 KPFDKDTSVEFLKRGFREVNLDVPENEIEEAVELLDGIPG 240

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A* Length = 260

 Score = 41.8 bits (98), Expect = 4e-04
 Identities = 26/180 (14%), Positives = 65/180 (36%), Gaps = 33/180 (18%)

Query: 56  LLLYGPPGTGKTSLVRAVVR---ECGAHLTVISPHSVHKAHV---GESEKALREAFSQAS 109
           ++L G PG GK++  + + +   +    + V+    + ++      + E+ ++++  +  
Sbjct: 7   IILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFPVWKEKYEEFIKKSTYRLI 66

Query: 110 SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST 169
             AL     +V     D        RR+           L++  K  K +  + ++    
Sbjct: 67  DSALKNYWVIV-----DDTNYYNSMRRD-----------LINIAK--KYNKNYAIIYLKA 108

Query: 170 NRVDAIDPALRRSGRFDAEV------EVTVPTAEERFEILKLYTKKVPLDANVDLEAIAT 223
           +    I   + R  +   EV      +   P  + +++   L    +    ++D   IA 
Sbjct: 109 SLDVLIRRNIERGEKIPNEVIKKMYEKFDEPGKKYKWDEPFL---IIDTTKDIDFNEIAK 165

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426} Length = 202

 Score = 40.8 bits (96), Expect = 4e-04
 Identities = 22/120 (18%), Positives = 43/120 (35%), Gaps = 23/120 (19%)

Query: 51  KWPRGLLLYGPPGTGKTSLVRAVVRE-CGAHLTVISPHS------VHKAHVGESEKALRE 103
           K  +GL L+G  G GKT L+ A+  E    +++ +  +       +  +   ++     +
Sbjct: 52  KKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKLD 111

Query: 104 AFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQ------DVRIASQLFTLMDSNKPSK 157
                       K  V+ +D++ A        R+         R+   L T   SN   +
Sbjct: 112 YIK---------KVPVLMLDDLGAE-AMSSWVRDDVFGPILQYRMFENLPTFFTSNFDMQ 161

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11 Length = 178

 Score = 40.8 bits (95), Expect = 4e-04
 Identities = 32/193 (16%), Positives = 52/193 (26%), Gaps = 57/193 (29%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECG----------------------------------AHL 81
           +++ G PG GKT+LV+ +V   G                                  +  
Sbjct: 3   IIITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGFRIITTEGKKKIFSSK 62

Query: 82  TVISPHSVHKAHV--GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQD 139
              S   V    V     E+       +A   A   +  V+ IDEI              
Sbjct: 63  FFTSKKLVGSYGVNVQYFEELAIPILERAYREAKKDRRKVIIIDEI-------GKMELFS 115

Query: 140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEER 199
            +    +  +M         V  V  +   +    +    R  G       +   T E R
Sbjct: 116 KKFRDLVRQIMHDPN-----VNVVATIPIRDVHPLVKEIRRLPG-----AVLIELTPENR 165

Query: 200 ----FEILKLYTK 208
                +IL L  +
Sbjct: 166 DVILEDILSLLER 178

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus} Length = 604

 Score = 41.6 bits (98), Expect = 7e-04
 Identities = 12/33 (36%), Positives = 17/33 (51%)

Query: 44 QAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRE 76
          +  K      R +LL G PGTGK+ L +A+   
Sbjct: 51 EVIKTAANQKRHVLLIGEPGTGKSMLGQAMAEL 83

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A Length = 377

 Score = 40.8 bits (95), Expect = 9e-04
 Identities = 26/130 (20%), Positives = 43/130 (33%), Gaps = 13/130 (10%)

Query: 13  EKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWP---RGLLLYGPPGTGKTSL 69
                   I    A V  L  L+           K  +      R  L  GP  +GKT+L
Sbjct: 126 FGSTGSADIEEWMAGVAWLHCLLPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTL 185

Query: 70  VRAVVRECGAHLTVIS-PHSVHKAH--VGESEKALREAFSQASSHALSGK--PSVVFIDE 124
             A++  CG     ++    + + +  +G +       F          +  PS   I+ 
Sbjct: 186 AAALLELCGGK--ALNVNLPLDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINN 243

Query: 125 IDALCPRRDH 134
           +D L   RD+
Sbjct: 244 LDNL---RDY 250

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	611
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	100.0
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	100.0
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	100.0
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	100.0
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	100.0
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	100.0
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	100.0
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	100.0
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	100.0
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	100.0
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	100.0
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	100.0
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	100.0
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	100.0
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	100.0
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	100.0
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	100.0
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	100.0
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	100.0
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	100.0
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	100.0
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	100.0
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	100.0
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	100.0
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	100.0
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	100.0
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	100.0
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	100.0
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	100.0
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	100.0
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	100.0
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	100.0
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	100.0
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	100.0
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	100.0
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	100.0
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.98
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.98
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.98
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.97
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.97
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.97
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.97
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.97
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.96
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.96
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.96
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.95
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.95
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.95
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.95
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.95
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.95
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.95
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.94
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.94
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.93
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.91
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.89
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.89
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.87
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.84
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.83
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.82
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.82
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.81
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.8
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.8
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.79
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.78
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.77
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.77
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.77
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.77
3pvs_A	447	Replication-associated recombination protein A; ma	99.76
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.76
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.75
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.74
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.74
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.74
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.74
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.73
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.73
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.73
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.72
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	99.71
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.71
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.7
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.7
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.69
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.69
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.69
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.69
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.69
3bos_A	242	Putative DNA replication factor; P-loop containing	99.68
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.68
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.68
3pvs_A	447	Replication-associated recombination protein A; ma	99.67
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.67
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.66
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.66
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.66
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.66
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.66
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.65
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.65
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.65
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.64
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.64
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.64
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.64
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.63
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.62
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.62
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.6
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.6
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.6
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.6
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.6
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.6
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.6
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.59
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.59
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.58
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.57
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.56
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.56
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.56
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.56
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.56
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.55
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.55
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.54
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.54
3bos_A	242	Putative DNA replication factor; P-loop containing	99.54
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.54
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.54
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.54
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.52
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.49
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.48
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.48
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.47
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.47
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.46
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.46
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.45
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.44
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.44
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.43
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.42
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.42
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.41
3co5_A	143	Putative two-component system transcriptional RES	99.4
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.4
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.38
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.38
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.34
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.31
3co5_A	143	Putative two-component system transcriptional RES	99.3
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.26
2krk_A	86	26S protease regulatory subunit 8; structural geno	99.21
3kw6_A	78	26S protease regulatory subunit 8; structural geno	99.21
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	99.2
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.2
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	99.2
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	99.2
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.17
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.04
2dzn_B	82	26S protease regulatory subunit 6B homolog; ankyri	98.98
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.86
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.84
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.79
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.78
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.75
2fna_A	357	Conserved hypothetical protein; structural genomic	98.75
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.74
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.74
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.73
2krk_A	86	26S protease regulatory subunit 8; structural geno	98.73
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.7
3f8t_A	506	Predicted ATPase involved in replication control,	98.7
3f8t_A	506	Predicted ATPase involved in replication control,	98.69
3kw6_A	78	26S protease regulatory subunit 8; structural geno	98.69
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.68
2fna_A	357	Conserved hypothetical protein; structural genomic	98.67
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.66
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	98.62
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.57
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.57
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.53
2qgz_A	308	Helicase loader, putative primosome component; str	98.51
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	98.49
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.48
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.47
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	98.46
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	98.45
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.43
2qgz_A	308	Helicase loader, putative primosome component; str	98.4
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.37
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	98.26
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.25
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	98.2
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.11
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	98.0
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.96
2dzn_B	82	26S protease regulatory subunit 6B homolog; ankyri	97.96
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.83
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.75
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.7
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.68
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.68
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.65
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.6
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.59
3io5_A	333	Recombination and repair protein; storage dimer, i	97.55
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.52
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.49
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.47
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.43
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.42
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.42
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	97.42
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.39
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	97.36
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.35
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	97.35
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.33
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.32
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.31
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.3
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.29
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.29
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.29
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	97.27
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.27
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.26
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.25
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.25
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.24
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.22
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.2
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.19
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.18
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.17
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.17
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.15
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.14
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.1
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.09
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.09
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.07
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.06
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.04
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.03
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.03
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.03
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.02
1via_A	175	Shikimate kinase; structural genomics, transferase	97.02
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.01
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.99
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.98
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.98
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.98
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.98
1via_A	175	Shikimate kinase; structural genomics, transferase	96.97
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.97
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.97
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.96
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	96.96
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.95
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.94
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.93
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.93
3io5_A	333	Recombination and repair protein; storage dimer, i	96.92
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.92
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.92
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.91
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.91
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.91
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.91
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.89
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	96.88
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.88
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.86
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.86
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.86
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.86
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.85
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.85
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.84
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.84
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.84
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	96.83
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	96.82
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.82
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.82
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.82
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.81
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.81
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.8
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.8
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.8
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.79
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.79
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.79
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.79
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.78
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.76
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	96.76
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.76
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.75
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	96.75
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.74
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.74
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.74
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.74
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	96.73
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.73
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.73
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.72
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.72
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	96.71
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.71
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.71
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.71
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.7
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.7
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.69
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.66
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.66
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.66
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.65
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.65
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.65
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.64
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.64
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.64
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.63
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.63
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.62
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.61
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.61
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	96.61
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.61
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.59
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.59
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.59
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.57
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.57
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.57
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.57
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.56
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.56
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.56
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.55
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.55
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.55
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.55
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.54
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.53
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.51
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.51
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.5
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.5
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.5
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.49
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	96.49
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.48
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.47
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.46
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.46
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.46
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.46
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.45
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.44
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.41
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.41
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.4
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.39
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.38
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.38
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.38
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	96.35
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.35
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.35
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.35
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.34
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.34
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.33
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.32
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.29
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.28
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.28
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.26
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.25
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.25
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.24
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.22
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.18
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	96.17
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.17
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.17
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	96.16
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.15
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.13
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.12
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.12
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.12
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.11
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.09
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.08
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.08
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.07
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.05
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.05
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.05
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.04
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.03
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.03
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.03
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.03
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.03
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.02
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.02
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.01
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	96.0
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.0
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.99
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	95.99
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.99
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.98
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.98
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.97
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	95.96
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.96
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.96
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.95
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.93
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.9
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.83
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.82
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.82
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.82
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.82
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.81
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.81
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.81
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.8
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	95.8
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.79
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.77
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	95.77
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.76
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.75
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.73
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	95.71
3b6e_A	216	Interferon-induced helicase C domain-containing P;	95.71
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.71
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	95.7
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.7
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.7
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	95.7
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.69
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.69
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.67
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.66
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.66
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.64
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.63
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.6
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.6
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	95.59
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.59
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.59
2og2_A	359	Putative signal recognition particle receptor; nuc	95.59
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.57
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.55
3ice_A	422	Transcription termination factor RHO; transcriptio	95.55
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.53
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.53
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	95.52
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.52
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.51
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.49
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.46
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.45
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.44
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.43
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.42
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	95.42
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.39
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.39
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.38
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.35
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.35
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.32
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.32
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.31
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.31

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=100.00  E-value=1.7e-90  Score=771.87  Aligned_cols=529  Identities=44%  Similarity=0.778  Sum_probs=437.0

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      ..+++|+|++++++.|++.+..|+.+++.+..+|..+|+++||+||||||||++|+++|++++.+++.++++++.+.+.|
T Consensus       201 v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~~g  280 (806)
T 3cf2_A          201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAG  280 (806)
T ss_dssp             CCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSCTT
T ss_pred             CChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcccch
Confidence            44589999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA  174 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~  174 (611)
                      +++..++.+|..+...    .||||||||+|.+++.++. .++...++.++|+..|+.....    .+|++|++||.++.
T Consensus       281 ese~~lr~lF~~A~~~----~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~----~~V~VIaaTN~~d~  352 (806)
T 3cf2_A          281 ESESNLRKAFEEAEKN----APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQR----AHVIVMAATNRPNS  352 (806)
T ss_dssp             HHHHHHHHHHHHHTTS----CSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGG----GCEEEEEECSSTTT
T ss_pred             HHHHHHHHHHHHHHHc----CCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhccccc----CCEEEEEecCChhh
Confidence            9999999999998754    5999999999999987753 3455678899999999986542    36999999999999


Q ss_pred             ccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccccc--
Q 007255          175 IDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN--  252 (611)
Q Consensus       175 l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~--  252 (611)
                      +|++++|+|||+.+|+++.|+.++|.+||+.+++......+.++..++..|+||+|.||..+|++|...++++..+..  
T Consensus       353 LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvdl~~lA~~T~GfsgaDL~~Lv~eA~~~A~~r~~~~i~~  432 (806)
T 3cf2_A          353 IDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDL  432 (806)
T ss_dssp             SCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHHHHHGGG
T ss_pred             cCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhccccccc
Confidence            999999999999999999999999999999999999888899999999999999999999999999999888754321  


Q ss_pred             -------ccccccchhHHHHHHHHhccCCcccccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCC
Q 007255          253 -------ECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVR  325 (611)
Q Consensus       253 -------~~~~~~~v~~ed~~~a~~~i~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~  325 (611)
                             +......++.+||..+...+.|+..+......|.++|++++|++++|+.|++.+.+|+.+++.|.++|..+++
T Consensus       433 ~~~~~~~e~~~~~~v~~~Df~~Al~~~~ps~~r~~~~~~p~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~  512 (806)
T 3cf2_A          433 EDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSK  512 (806)
T ss_dssp             TCCCCSHHHHHHCEECTTHHHHHHSSSSCCCCCCCCCBCCCCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCS
T ss_pred             cccccchhhhccceeeHHHHHHHHHhCCCcccccccccCCCCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCc
Confidence                   1113456788999999999999999988889999999999999999999999999999999999999999999


Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCC
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST  405 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~  405 (611)
                      ++|||||||||||++|+++|++++.+|+.++++++.++|+|++++.++.+|..|+...||||||||+|.++++|+...+.
T Consensus       513 gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~vGese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~  592 (806)
T 3cf2_A          513 GVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGD  592 (806)
T ss_dssp             CCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTTCSSCHHHHHHHHHHHHTTCSEEEECSCGGGCC---------
T ss_pred             eEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhccccchHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999765555


Q ss_pred             CcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccH
Q 007255          406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDL  485 (611)
Q Consensus       406 ~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~  485 (611)
                      .....++++++||.+||++...++++||+|||+|+.||+|++||||||++|+||+|+.++|.+||+.++++.++..++|+
T Consensus       593 ~~~~~~rv~~~lL~~mdg~~~~~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~~~~dl  672 (806)
T 3cf2_A          593 GGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDL  672 (806)
T ss_dssp             -----CHHHHHHHHHHHSSCSSSSEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--CCC---
T ss_pred             CchHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCCCCCCH
Confidence            55667899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccc-----------------------ccccHHHHHHHHhhcCCCCCHHHH
Q 007255          486 RSIAEETELFTGAELEGLCREAGIVALREDISA-----------------------TAVRNRHFQTVKDSLKPALTKEEI  542 (611)
Q Consensus       486 ~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~-----------------------~~i~~~~~~~~l~~~~~~~~~~~~  542 (611)
                      +.||+.|+||||+||.++|++|+..|+++.+..                       .+|+..||..|+.+++|+++++++
T Consensus       673 ~~la~~t~g~SGadi~~l~~~A~~~a~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~df~~al~~~~pSvs~~~l  752 (806)
T 3cf2_A          673 EFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVSDNDI  752 (806)
T ss_dssp             -------------CHHHHHHHHHHHHHHHHHC-----------------------CCC----CCTTTC------------
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccCccccccccccccCccCHHHHHHHHHhCCCCCCHHHH
Confidence            999999999999999999999999999886532                       258999999999999999999999


Q ss_pred             HHHHHHhhcC
Q 007255          543 DSYSSFMKSQ  552 (611)
Q Consensus       543 ~~~~~~~~~~  552 (611)
                      ++|++|.++.
T Consensus       753 ~~y~~~~~~f  762 (806)
T 3cf2_A          753 RKYEMFAQTL  762 (806)
T ss_dssp             ---CCCC---
T ss_pred             HHHHHHHHHH
Confidence            9999998765

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.5e-53  Score=437.62  Aligned_cols=261  Identities=39%  Similarity=0.686  Sum_probs=245.5

Q ss_pred             CCcccccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE
Q 007255          273 GPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF  352 (611)
Q Consensus       273 ~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~  352 (611)
                      .|........+.|.++|+||+|++++|+.|++.+.+|+.+|+.|.++|.++|+|+|||||||||||++|+|+|++++++|
T Consensus       131 ~~~~~~~~~~~~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f  210 (405)
T 4b4t_J          131 DPLVSLMMVEKVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKF  210 (405)
T ss_dssp             SCCTTSCEEECSCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEE
T ss_pred             CchhhhccccCCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCc
Confidence            45555566677899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEE
Q 007255          353 FSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILV  432 (611)
Q Consensus       353 ~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  432 (611)
                      +.++++++.++|+|+++..++.+|..|+..+||||||||+|.++++|+..+++......+.+++||.+||++...++++|
T Consensus       211 ~~v~~s~l~sk~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~v  290 (405)
T 4b4t_J          211 IRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKI  290 (405)
T ss_dssp             EEEEGGGGSCSSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEE
T ss_pred             eEEEhHHhhccccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEE
Confidence            99999999999999999999999999999999999999999999998766655555667899999999999999999999


Q ss_pred             EEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 007255          433 LAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVAL  512 (611)
Q Consensus       433 I~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~  512 (611)
                      |+|||+|+.||||++||||||+.|+||+||.++|.+||+.+++++++..++|++.||+.|+||||+||.++|++|+..|+
T Consensus       291 IaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvdl~~lA~~t~G~SGADi~~l~~eA~~~Ai  370 (405)
T 4b4t_J          291 IMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCTEAGMYAL  370 (405)
T ss_dssp             EEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCCHHHHHHHCCSCCHHHHHHHHHHHHHHHH
T ss_pred             EeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             HhhcccccccHHHHHHHHhhcCC
Q 007255          513 REDISATAVRNRHFQTVKDSLKP  535 (611)
Q Consensus       513 ~~~~~~~~i~~~~~~~~l~~~~~  535 (611)
                      ++.  ...++.+||..|+.++.+
T Consensus       371 r~~--~~~vt~~Df~~Al~~v~~  391 (405)
T 4b4t_J          371 RER--RIHVTQEDFELAVGKVMN  391 (405)
T ss_dssp             HTT--CSBCCHHHHHHHHHHHHH
T ss_pred             HcC--CCCcCHHHHHHHHHHHhC
Confidence            874  567999999999987754

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1e-51  Score=424.25  Aligned_cols=257  Identities=35%  Similarity=0.633  Sum_probs=241.7

Q ss_pred             cccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecch
Q 007255          279 GVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (611)
Q Consensus       279 ~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~  358 (611)
                      ......|.++|+||+|++++|+.|++.+.+|+.+++.|.++|.++++|+|||||||||||++|+|+|++++++|+.++++
T Consensus       171 ~~~~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s  250 (437)
T 4b4t_I          171 MKMDKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGS  250 (437)
T ss_dssp             CEEESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESG
T ss_pred             eeeccCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHH
Confidence            33456789999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCC
Q 007255          359 ELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR  438 (611)
Q Consensus       359 ~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~  438 (611)
                      ++.++|+|+++..++.+|..|+..+||||||||+|.++++|+..++.......+.+++||..||++...++++||+|||+
T Consensus       251 ~l~sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNr  330 (437)
T 4b4t_I          251 ELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNK  330 (437)
T ss_dssp             GGCCSSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESC
T ss_pred             HhhhccCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCC
Confidence            99999999999999999999999999999999999999999766665556667889999999999999999999999999


Q ss_pred             CcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccc
Q 007255          439 PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISA  518 (611)
Q Consensus       439 ~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~  518 (611)
                      |+.||+|++||||||++|+|++||.++|.+||+.+++++++..++|++.||+.|+||||+||+++|++|+..|+++.  .
T Consensus       331 pd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~eA~~~Air~~--~  408 (437)
T 4b4t_I          331 IETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAMCTEAGLLALRER--R  408 (437)
T ss_dssp             STTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHTT--C
T ss_pred             hhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcC--C
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999875  5


Q ss_pred             ccccHHHHHHHHhhcCCCC
Q 007255          519 TAVRNRHFQTVKDSLKPAL  537 (611)
Q Consensus       519 ~~i~~~~~~~~l~~~~~~~  537 (611)
                      ..|+.+||..|+.++.+..
T Consensus       409 ~~It~eDf~~Al~rv~~~~  427 (437)
T 4b4t_I          409 MQVTAEDFKQAKERVMKNK  427 (437)
T ss_dssp             SCBCHHHHHHHHHHHHHHH
T ss_pred             CccCHHHHHHHHHHHhCCC
Confidence            6799999999998776543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.2e-50  Score=423.35  Aligned_cols=265  Identities=33%  Similarity=0.576  Sum_probs=244.8

Q ss_pred             cccccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          275 SITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       275 ~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      ..........|.++|+||+|++++++.|.+.+.+|+.+++.|.++|+++++|+|||||||||||++|+|+|++++++|+.
T Consensus       166 ~~~~~~~~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~  245 (437)
T 4b4t_L          166 LVYNMTSFEQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIF  245 (437)
T ss_dssp             CCSSCEEEESCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             hhheeeeccCCCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEE
Confidence            33344455678999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEE
Q 007255          355 LSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLA  434 (611)
Q Consensus       355 ~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~  434 (611)
                      ++++++.++|+|+++..++.+|..|+...||||||||+|.++++|+..+........+.+++||..||++...++++||+
T Consensus       246 v~~s~l~sk~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~  325 (437)
T 4b4t_L          246 SPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIM  325 (437)
T ss_dssp             EEGGGTCCSSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEE
T ss_pred             EehhhhccccchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEE
Confidence            99999999999999999999999999999999999999999999876665555566788999999999999999999999


Q ss_pred             ecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHh
Q 007255          435 ATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE  514 (611)
Q Consensus       435 ~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~  514 (611)
                      |||+|+.||||++||||||+.|+||+||.++|.+||+.++++++...++|++.+|+.|+||||+||.++|++|+..|+++
T Consensus       326 ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~dl~~lA~~t~G~sGADi~~l~~eA~~~air~  405 (437)
T 4b4t_L          326 ATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCATEAGFFAIRD  405 (437)
T ss_dssp             EESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCCHHHHHHTCCSCCHHHHHHHHHHHHHHHHHT
T ss_pred             ecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999987


Q ss_pred             hcccccccHHHHHHHHhhcCCCCCHHH
Q 007255          515 DISATAVRNRHFQTVKDSLKPALTKEE  541 (611)
Q Consensus       515 ~~~~~~i~~~~~~~~l~~~~~~~~~~~  541 (611)
                      .  ...|+.+||..|++++.|....+.
T Consensus       406 ~--~~~i~~~d~~~Al~~v~~~~k~e~  430 (437)
T 4b4t_L          406 D--RDHINPDDLMKAVRKVAEVKKLEG  430 (437)
T ss_dssp             T--CSSBCHHHHHHHHHHHHHTCC---
T ss_pred             C--CCCCCHHHHHHHHHHHHhccCccc
Confidence            5  457999999999998877655443

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.6e-50  Score=419.65  Aligned_cols=252  Identities=38%  Similarity=0.642  Sum_probs=239.1

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      .+.|.++|+||+|++++|+.|++.+.+|+.+++.|.++|+++++|+|||||||||||++|+|+|++++++|+.++++++.
T Consensus       201 ~e~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~  280 (467)
T 4b4t_H          201 EEKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELV  280 (467)
T ss_dssp             ESSCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGC
T ss_pred             cCCCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhh
Confidence            35789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc
Q 007255          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA  441 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~  441 (611)
                      ++|+|++++.++.+|..|+..+||||||||+|.++++|+..+++......+.++++|.+||++...++++||+|||+|+.
T Consensus       281 sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~  360 (467)
T 4b4t_H          281 QKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNT  360 (467)
T ss_dssp             CCSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTS
T ss_pred             cccCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCccc
Confidence            99999999999999999999999999999999999998776665556667889999999999999999999999999999


Q ss_pred             cchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccc
Q 007255          442 IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAV  521 (611)
Q Consensus       442 ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i  521 (611)
                      ||+|++||||||++|+|++|+.++|.+||+.+++++++..+++++.||+.|+||||+||+++|++|+..|+++.  ...+
T Consensus       361 LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~eAa~~Air~~--~~~i  438 (467)
T 4b4t_H          361 LDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRAR--RKVA  438 (467)
T ss_dssp             BCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHT--CSSB
T ss_pred             CChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcC--CCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999998875  5679


Q ss_pred             cHHHHHHHHhhcCC
Q 007255          522 RNRHFQTVKDSLKP  535 (611)
Q Consensus       522 ~~~~~~~~l~~~~~  535 (611)
                      +..||..|+.++.+
T Consensus       439 t~~Df~~Al~kV~~  452 (467)
T 4b4t_H          439 TEKDFLKAVDKVIS  452 (467)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhc
Confidence            99999999987643

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=2.3e-50  Score=420.92  Aligned_cols=262  Identities=36%  Similarity=0.617  Sum_probs=243.9

Q ss_pred             cccccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          275 SITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       275 ~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      ..........|.++|+||+|++++|+.|++.+.+|+.+++.|.++|.++++|+|||||||||||++|+|+|++++++|+.
T Consensus       166 ~~~~~~~~~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~  245 (434)
T 4b4t_M          166 RVKAMEVDEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLK  245 (434)
T ss_dssp             SCSCCEEESSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             hhhhcccCCCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEE
Confidence            33334445678999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEE
Q 007255          355 LSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLA  434 (611)
Q Consensus       355 ~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~  434 (611)
                      ++++++.++|+|++++.++.+|..|+...||||||||+|.++++|....+.......+.+++||+.||++...++++||+
T Consensus       246 v~~s~l~~~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIa  325 (434)
T 4b4t_M          246 LAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLA  325 (434)
T ss_dssp             EEGGGGCSSCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEE
T ss_pred             EehhhhhhcccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEE
Confidence            99999999999999999999999999999999999999999999876555444556778899999999999999999999


Q ss_pred             ecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHh
Q 007255          435 ATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRE  514 (611)
Q Consensus       435 ~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~  514 (611)
                      |||+|+.||||++||||||++|+||+||.++|.+||+.++++++...+++++.||+.|+||||+||.++|++|+..|+++
T Consensus       326 aTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t~G~sGADi~~l~~eA~~~a~r~  405 (434)
T 4b4t_M          326 ATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARSTDEFNGAQLKAVTVEAGMIALRN  405 (434)
T ss_dssp             ECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCCHHHHHHHCSSCCHHHHHHHHHHHHHHHHHH
T ss_pred             eCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999887


Q ss_pred             hcccccccHHHHHHHHhhcCCCCC
Q 007255          515 DISATAVRNRHFQTVKDSLKPALT  538 (611)
Q Consensus       515 ~~~~~~i~~~~~~~~l~~~~~~~~  538 (611)
                      .  ...|+.+||..|+.+++|..+
T Consensus       406 ~--~~~i~~~Df~~Al~~v~~~~~  427 (434)
T 4b4t_M          406 G--QSSVKHEDFVEGISEVQARKS  427 (434)
T ss_dssp             T--CSSBCHHHHHHHHHSCSSSCC
T ss_pred             C--CCCcCHHHHHHHHHHHhCCCC
Confidence            5  567999999999999888643

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.3e-49  Score=415.06  Aligned_cols=257  Identities=36%  Similarity=0.602  Sum_probs=240.6

Q ss_pred             cccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhh
Q 007255          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (611)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~  360 (611)
                      ....|.++|+||+|++++|+.|.+.+.+|+.+++.|.++|.++++|+|||||||||||++|+|+|++++++|+.++++++
T Consensus       163 ~~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l  242 (428)
T 4b4t_K          163 ENEKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEF  242 (428)
T ss_dssp             EESSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGT
T ss_pred             CCCCCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchh
Confidence            44678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCc
Q 007255          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH  440 (611)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~  440 (611)
                      .++|+|+++..++.+|..|+...|||+||||+|.++++|............+++++||++||++....+++||+|||+|+
T Consensus       243 ~~~~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN~~~  322 (428)
T 4b4t_K          243 VHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRAD  322 (428)
T ss_dssp             CCSSCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEESCSS
T ss_pred             hccccchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEEecCChh
Confidence            99999999999999999999999999999999999999876666555667899999999999999999999999999999


Q ss_pred             ccchhccCCCCccceeecC-CCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccc
Q 007255          441 AIDAALMRPGRFDLVLYVP-PPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISAT  519 (611)
Q Consensus       441 ~ld~al~r~gRf~~~i~~~-~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~  519 (611)
                      .||||++||||||..|+|| +|+.++|..||+.+++++++..++|++.+|..|+||||+||.++|++|+..|+++.  ..
T Consensus       323 ~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~dl~~lA~~t~G~sgadi~~l~~eA~~~a~r~~--~~  400 (428)
T 4b4t_K          323 TLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKN--RY  400 (428)
T ss_dssp             SCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCCHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTT--CS
T ss_pred             hcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCC--CC
Confidence            9999999999999999997 89999999999999999999999999999999999999999999999999999875  56


Q ss_pred             cccHHHHHHHHhh-cCCCCCH
Q 007255          520 AVRNRHFQTVKDS-LKPALTK  539 (611)
Q Consensus       520 ~i~~~~~~~~l~~-~~~~~~~  539 (611)
                      .++..||..|+.+ +++..+.
T Consensus       401 ~i~~~d~~~A~~~~~~~~~~~  421 (428)
T 4b4t_K          401 VILQSDLEEAYATQVKTDNTV  421 (428)
T ss_dssp             SBCHHHHHHHHHHHSCSCCCS
T ss_pred             CCCHHHHHHHHHHhhCccCCc
Confidence            7999999999865 4554443

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.3e-41  Score=349.12  Aligned_cols=251  Identities=33%  Similarity=0.577  Sum_probs=225.8

Q ss_pred             ccccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255            4 KGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus         4 ~~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .+.+.+.+++.|   +||+|++++|+.|++.+..|+.+++.+..+|+++|+++|||||||||||++|+++|.+++.+|+.
T Consensus       136 ~~~~~~~p~v~~---~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~  212 (405)
T 4b4t_J          136 LMMVEKVPDSTY---DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIR  212 (405)
T ss_dssp             SCEEECSCSCCG---GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEE
T ss_pred             hccccCCCCCCH---HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceE
Confidence            345667788888   89999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCc----hhhHHHHHHHHHHHhcCCCCCCC
Q 007255           84 ISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR----EQDVRIASQLFTLMDSNKPSKTS  159 (611)
Q Consensus        84 v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~----~~~~~~~~~ll~~l~~~~~~~~~  159 (611)
                      ++++++.+.+.|+++..++.+|..+....    ||||||||+|.+++.+....    ....+.+.+|++.||.....   
T Consensus       213 v~~s~l~sk~vGese~~vr~lF~~Ar~~a----P~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~---  285 (405)
T 4b4t_J          213 VSGAELVQKYIGEGSRMVRELFVMAREHA----PSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETS---  285 (405)
T ss_dssp             EEGGGGSCSSTTHHHHHHHHHHHHHHHTC----SEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCC---
T ss_pred             EEhHHhhccccchHHHHHHHHHHHHHHhC----CceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCC---
Confidence            99999999999999999999999998664    99999999999998764322    23346778899999976542   


Q ss_pred             CCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHH
Q 007255          160 VPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCRE  239 (611)
Q Consensus       160 ~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~  239 (611)
                       .+|++|+|||.++.+||+++|+|||+..|+|+.|+.++|.+||+.++++..+..+.++..+|..|+||+|+||.++|++
T Consensus       286 -~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvdl~~lA~~t~G~SGADi~~l~~e  364 (405)
T 4b4t_J          286 -KNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCTE  364 (405)
T ss_dssp             -CCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCCHHHHHHHCCSCCHHHHHHHHHH
T ss_pred             -CCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHCCCCCHHHHHHHHHH
Confidence             3699999999999999999999999999999999999999999999999998889999999999999999999999999


Q ss_pred             HHHHHhhhcccccccccccchhHHHHHHHHhccC
Q 007255          240 ATMSAVKRSSDANECAGVLSVTMEDWRHARSVVG  273 (611)
Q Consensus       240 a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~  273 (611)
                      |...++++..        ..++.+||..|...+.
T Consensus       365 A~~~Air~~~--------~~vt~~Df~~Al~~v~  390 (405)
T 4b4t_J          365 AGMYALRERR--------IHVTQEDFELAVGKVM  390 (405)
T ss_dssp             HHHHHHHTTC--------SBCCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCC--------CCcCHHHHHHHHHHHh
Confidence            9999887532        3588999998877653

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=100.00  E-value=2.8e-41  Score=342.81  Aligned_cols=273  Identities=42%  Similarity=0.803  Sum_probs=250.0

Q ss_pred             cccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecch
Q 007255          279 GVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (611)
Q Consensus       279 ~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~  358 (611)
                      ......|.++|++|+|++.+++.|.+.+.+|+.+++.|..++..+++++||+||||||||++|+++|++++.+++.++++
T Consensus         4 ~~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~   83 (301)
T 3cf0_A            4 ETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGP   83 (301)
T ss_dssp             CCCEECCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHH
T ss_pred             cccccCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhH
Confidence            34456788999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCC
Q 007255          359 ELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR  438 (611)
Q Consensus       359 ~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~  438 (611)
                      ++.++|.|..+..++.+|..++...|+||||||+|.+...++...........+++++|+..|+++....+++||+|||+
T Consensus        84 ~l~~~~~g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn~  163 (301)
T 3cf0_A           84 ELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR  163 (301)
T ss_dssp             HHHHHHHTTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEESC
T ss_pred             HHHhhhcCchHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEecCC
Confidence            99999999999999999999999999999999999998877544333334556889999999999888889999999999


Q ss_pred             CcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcc-
Q 007255          439 PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDIS-  517 (611)
Q Consensus       439 ~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~-  517 (611)
                      |+.+|++++|+|||+..++++.|+.++|.+|++.++++.+...+++++.++..+.||||+||.++|++|...+..+.+. 
T Consensus       164 ~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~~~~la~~~~g~sg~dl~~l~~~a~~~a~~~~~~~  243 (301)
T 3cf0_A          164 PDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIES  243 (301)
T ss_dssp             GGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHTCSSCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccchHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999888888899999999999999999999999999998876541 


Q ss_pred             ----------------------cccccHHHHHHHHhhcCCCCCHHHHHHHHHHhhc
Q 007255          518 ----------------------ATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKS  551 (611)
Q Consensus       518 ----------------------~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  551 (611)
                                            ..+++..||..|+...+|+++.++++.|++|.+.
T Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~al~~~~~s~~~~~~~~~~~~~~~  299 (301)
T 3cf0_A          244 EIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVSDNDIRKYEMFAQT  299 (301)
T ss_dssp             HC--------------------CCCBCHHHHHHHHTTCCCSSCHHHHHHHHHHHHH
T ss_pred             hhhhhhhcccccccccccccccCCccCHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence                                  1368999999999999999999999999999865

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=100.00  E-value=5.8e-42  Score=381.90  Aligned_cols=252  Identities=43%  Similarity=0.697  Sum_probs=235.5

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      ...|.++|+||+|++++++.|++.+.+|+.+++.|.++|..+|+|+|||||||||||++|+++|++++.+++.++++++.
T Consensus       196 ~~~~~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~  275 (806)
T 3cf2_A          196 ESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  275 (806)
T ss_dssp             CCSSSCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHH
T ss_pred             ccCCCCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhh
Confidence            34678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc
Q 007255          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA  441 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~  441 (611)
                      ++|.|+++..++.+|..|+..+||||||||+|.|+++|+...   ....++++++|+..|+++...++++||+|||+|+.
T Consensus       276 sk~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~---~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~  352 (806)
T 3cf2_A          276 SKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH---GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNS  352 (806)
T ss_dssp             SSCTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCC---CTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTT
T ss_pred             cccchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCC---ChHHHHHHHHHHHHHhcccccCCEEEEEecCChhh
Confidence            999999999999999999999999999999999999886433   24567899999999999988899999999999999


Q ss_pred             cchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcc----
Q 007255          442 IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDIS----  517 (611)
Q Consensus       442 ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~----  517 (611)
                      +|++++|||||++.|+++.|+.++|.+||+.++++.+...++++..+|..|+||+++||..+|++|...|+++...    
T Consensus       353 LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvdl~~lA~~T~GfsgaDL~~Lv~eA~~~A~~r~~~~i~~  432 (806)
T 3cf2_A          353 IDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDL  432 (806)
T ss_dssp             SCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHHHHHGGG
T ss_pred             cCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhccccccc
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999887542    


Q ss_pred             -----------cccccHHHHHHHHhhcCCC
Q 007255          518 -----------ATAVRNRHFQTVKDSLKPA  536 (611)
Q Consensus       518 -----------~~~i~~~~~~~~l~~~~~~  536 (611)
                                 ...++.+||..++..++|+
T Consensus       433 ~~~~~~~e~~~~~~v~~~Df~~Al~~~~ps  462 (806)
T 3cf2_A          433 EDETIDAEVMNSLAVTMDDFRWALSQSNPS  462 (806)
T ss_dssp             TCCCCSHHHHHHCEECTTHHHHHHSSSSCC
T ss_pred             cccccchhhhccceeeHHHHHHHHHhCCCc
Confidence                       2347888999999888765

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=6.2e-41  Score=344.40  Aligned_cols=251  Identities=31%  Similarity=0.546  Sum_probs=225.5

Q ss_pred             cccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255            5 GRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus         5 ~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      +.+.+.+++.|   ++|+|++++|+.|.+.+..|+.+++.+...|+++|+++|||||||||||++|+++|.+++.+|+.+
T Consensus       171 ~~~~~~p~v~~---~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v  247 (437)
T 4b4t_I          171 MKMDKSPTESY---SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRI  247 (437)
T ss_dssp             CEEESSCCCCG---GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEE
T ss_pred             eeeccCCCCcc---eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEE
Confidence            45667788888   899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCc----hhhHHHHHHHHHHHhcCCCCCCCC
Q 007255           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR----EQDVRIASQLFTLMDSNKPSKTSV  160 (611)
Q Consensus        85 ~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~----~~~~~~~~~ll~~l~~~~~~~~~~  160 (611)
                      +++++.+.+.|+++..++.+|..+...    .||||||||+|.+++.+....    ........++++.+|.....    
T Consensus       248 ~~s~l~sk~vGesek~ir~lF~~Ar~~----aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~----  319 (437)
T 4b4t_I          248 VGSELIQKYLGDGPRLCRQIFKVAGEN----APSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDR----  319 (437)
T ss_dssp             ESGGGCCSSSSHHHHHHHHHHHHHHHT----CSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCS----
T ss_pred             EHHHhhhccCchHHHHHHHHHHHHHhc----CCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCC----
Confidence            999999999999999999999998865    499999999999998774322    23346677888888875432    


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHH
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      .+|+||+|||.++.|||+++|+|||+..|+|+.|+.++|.+||+.++.+..+..+++++.+|..|+||+|+||.++|++|
T Consensus       320 ~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~eA  399 (437)
T 4b4t_I          320 GDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAMCTEA  399 (437)
T ss_dssp             SSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCCHHHHHHHCCSCCHHHHHHHHHHH
T ss_pred             CCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHHHHHHHH
Confidence            36999999999999999999999999999999999999999999999999998899999999999999999999999999


Q ss_pred             HHHHhhhcccccccccccchhHHHHHHHHhccCC
Q 007255          241 TMSAVKRSSDANECAGVLSVTMEDWRHARSVVGP  274 (611)
Q Consensus       241 ~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~  274 (611)
                      ...++++..        ..++.+||..|...+.+
T Consensus       400 ~~~Air~~~--------~~It~eDf~~Al~rv~~  425 (437)
T 4b4t_I          400 GLLALRERR--------MQVTAEDFKQAKERVMK  425 (437)
T ss_dssp             HHHHHHTTC--------SCBCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCC--------CccCHHHHHHHHHHHhC
Confidence            999987543        35889999998876544

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=3.2e-40  Score=344.45  Aligned_cols=256  Identities=33%  Similarity=0.563  Sum_probs=228.4

Q ss_pred             cccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255            5 GRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus         5 ~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      +.+.+.+++.|   ++|+|++++|+.|.+.+..|+.+++.+...|+++|+++|||||||||||++|+++|.+++.+++.+
T Consensus       170 ~~~~~~p~~t~---~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v  246 (434)
T 4b4t_M          170 MEVDEKPTETY---SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKL  246 (434)
T ss_dssp             CEEESSCSCCG---GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEE
T ss_pred             cccCCCCCCCh---HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEE
Confidence            34455677777   999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCch----hhHHHHHHHHHHHhcCCCCCCCC
Q 007255           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRRE----QDVRIASQLFTLMDSNKPSKTSV  160 (611)
Q Consensus        85 ~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~----~~~~~~~~ll~~l~~~~~~~~~~  160 (611)
                      +++++.+.+.|+++..++.+|..+....    ||||||||+|.+++.+.....    .......+|++.||.....    
T Consensus       247 ~~s~l~~~~vGese~~ir~lF~~A~~~a----P~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~----  318 (434)
T 4b4t_M          247 AAPQLVQMYIGEGAKLVRDAFALAKEKA----PTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSD----  318 (434)
T ss_dssp             EGGGGCSSCSSHHHHHHHHHHHHHHHHC----SEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSS----
T ss_pred             ehhhhhhcccchHHHHHHHHHHHHHhcC----CeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCC----
Confidence            9999999999999999999999988764    999999999999987743322    2345667888888876542    


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHH
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      .+|+||+|||.++.+||+++|+|||+..|+|+.|+.++|.+||+.++++.....++++..+|..|+||+|+||.++|++|
T Consensus       319 ~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t~G~sGADi~~l~~eA  398 (434)
T 4b4t_M          319 DRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARSTDEFNGAQLKAVTVEA  398 (434)
T ss_dssp             CSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCCHHHHHHHCSSCCHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHHHHHHHH
Confidence            36899999999999999999999999999999999999999999999999988899999999999999999999999999


Q ss_pred             HHHHhhhcccccccccccchhHHHHHHHHhccCCccccc
Q 007255          241 TMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRG  279 (611)
Q Consensus       241 ~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~~~~  279 (611)
                      ...++++..        ..++.+||..+...+.+...+.
T Consensus       399 ~~~a~r~~~--------~~i~~~Df~~Al~~v~~~~~~~  429 (434)
T 4b4t_M          399 GMIALRNGQ--------SSVKHEDFVEGISEVQARKSKS  429 (434)
T ss_dssp             HHHHHHHTC--------SSBCHHHHHHHHHSCSSSCCCC
T ss_pred             HHHHHHcCC--------CCcCHHHHHHHHHHHhCCCCcC
Confidence            999887643        2588999999999888765543

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=6.5e-40  Score=340.17  Aligned_cols=249  Identities=33%  Similarity=0.550  Sum_probs=223.4

Q ss_pred             cccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255            5 GRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus         5 ~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      +.|.+.+++.|   +||+|++++|+.|++.+..|+.+++.+..+|+++|+++|||||||||||++|+++|++++.+|+.+
T Consensus       198 m~v~e~P~vt~---~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~v  274 (467)
T 4b4t_H          198 MTVEEKPDVTY---SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRV  274 (467)
T ss_dssp             CEEESSCSCCC---SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEE
T ss_pred             eeecCCCCCCH---HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEE
Confidence            55677888888   899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCc----hhhHHHHHHHHHHHhcCCCCCCCC
Q 007255           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR----EQDVRIASQLFTLMDSNKPSKTSV  160 (611)
Q Consensus        85 ~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~----~~~~~~~~~ll~~l~~~~~~~~~~  160 (611)
                      +++++.+.+.|+++..++.+|..+...    .||||||||+|.++..+....    ........+++..|+....    .
T Consensus       275 s~s~L~sk~vGesek~ir~lF~~Ar~~----aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~----~  346 (467)
T 4b4t_H          275 IGSELVQKYVGEGARMVRELFEMARTK----KACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDP----R  346 (467)
T ss_dssp             EGGGGCCCSSSHHHHHHHHHHHHHHHT----CSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCC----T
T ss_pred             EhHHhhcccCCHHHHHHHHHHHHHHhc----CCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCC----C
Confidence            999999999999999999999998865    499999999999998764322    2234566778888886543    3


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHH
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      .+|++|+|||+++.||++++|+|||+.+|+|+.|+.++|.+||+.+++...+..+++++.++..|.||+|+||.++|++|
T Consensus       347 ~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~eA  426 (467)
T 4b4t_H          347 GNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEA  426 (467)
T ss_dssp             TTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHHCCSCCHHHHHHHHHHH
T ss_pred             CcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHH
Confidence            36999999999999999999999999999999999999999999999999998899999999999999999999999999


Q ss_pred             HHHHhhhcccccccccccchhHHHHHHHHhcc
Q 007255          241 TMSAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       241 ~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i  272 (611)
                      ...++++..        ..++.+||..+...+
T Consensus       427 a~~Air~~~--------~~it~~Df~~Al~kV  450 (467)
T 4b4t_H          427 GMFAIRARR--------KVATEKDFLKAVDKV  450 (467)
T ss_dssp             HHHHHHHTC--------SSBCHHHHHHHHHHH
T ss_pred             HHHHHHcCC--------CccCHHHHHHHHHHH
Confidence            999887643        247888998887654

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=3.8e-40  Score=344.18  Aligned_cols=252  Identities=34%  Similarity=0.552  Sum_probs=225.6

Q ss_pred             cccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255            5 GRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus         5 ~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      +.+.+.+++.|   ++|+|++++|+.|.+.+..|+.+++.|..+|+++|+++|||||||||||++|+++|.+++.+++.+
T Consensus       170 ~~~~~~p~v~~---~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v  246 (437)
T 4b4t_L          170 MTSFEQGEITF---DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFS  246 (437)
T ss_dssp             CEEEESCSSCS---GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEE
T ss_pred             eeeccCCCCCh---hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEE
Confidence            45566778888   999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCc----hhhHHHHHHHHHHHhcCCCCCCCC
Q 007255           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR----EQDVRIASQLFTLMDSNKPSKTSV  160 (611)
Q Consensus        85 ~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~----~~~~~~~~~ll~~l~~~~~~~~~~  160 (611)
                      +++++.+.+.|+++..++.+|..+...    .||||||||+|.+++.+...+    ......+.+|+..||+....    
T Consensus       247 ~~s~l~sk~~Gese~~ir~~F~~A~~~----~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~----  318 (437)
T 4b4t_L          247 PASGIVDKYIGESARIIREMFAYAKEH----EPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNL----  318 (437)
T ss_dssp             EGGGTCCSSSSHHHHHHHHHHHHHHHS----CSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCT----
T ss_pred             ehhhhccccchHHHHHHHHHHHHHHhc----CCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCC----
Confidence            999999999999999999999998865    499999999999998764321    22345678899999976543    


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHH
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      .+++||+|||.++.+||+++|+|||+..|+|+.|+.++|.+||+.++.+.....+.++..++..|+||+|+||.++|++|
T Consensus       319 ~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~dl~~lA~~t~G~sGADi~~l~~eA  398 (437)
T 4b4t_L          319 GQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCATEA  398 (437)
T ss_dssp             TSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCCHHHHHHTCCSCCHHHHHHHHHHH
T ss_pred             CCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccCHHHHHHhCCCCCHHHHHHHHHHH
Confidence            36899999999999999999999999999999999999999999999999888889999999999999999999999999


Q ss_pred             HHHHhhhcccccccccccchhHHHHHHHHhccCCc
Q 007255          241 TMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPS  275 (611)
Q Consensus       241 ~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~  275 (611)
                      ...++++..        ..++.+||..+...+.+.
T Consensus       399 ~~~air~~~--------~~i~~~d~~~Al~~v~~~  425 (437)
T 4b4t_L          399 GFFAIRDDR--------DHINPDDLMKAVRKVAEV  425 (437)
T ss_dssp             HHHHHHTTC--------SSBCHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCC--------CCCCHHHHHHHHHHHHhc
Confidence            999987543        258899999988766543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=100.00  E-value=6.5e-40  Score=335.33  Aligned_cols=265  Identities=35%  Similarity=0.605  Sum_probs=240.3

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-CCcEEeecchhh
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-EASFFSLSGAEL  360 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-~~~~~~~~~~~~  360 (611)
                      ...|.++|++|+|++.+++.|.+.+.+|+.+++.|.. +..+++++|||||||||||++|+++|+++ +.+++.++++++
T Consensus         4 ~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l   82 (322)
T 1xwi_A            4 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDL   82 (322)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCT-TCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSS
T ss_pred             ecCCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhC-CCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHH
Confidence            3567899999999999999999999999999998874 35677999999999999999999999999 899999999999


Q ss_pred             ccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-CCCCeEEEEecCCC
Q 007255          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-QAKGILVLAATNRP  439 (611)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-~~~~~~vI~~tn~~  439 (611)
                      .++|.|.++..++.+|..++...|+||||||+|.+.++++..   ......+++++|+..|+++. ...+++||+|||.|
T Consensus        83 ~~~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~  159 (322)
T 1xwi_A           83 VSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSEN---ESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIP  159 (322)
T ss_dssp             CCSSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSC---CTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCT
T ss_pred             HhhhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccc---cchHHHHHHHHHHHHHhcccccCCCEEEEEecCCc
Confidence            999999999999999999999999999999999998877543   23456789999999999875 46789999999999


Q ss_pred             cccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcc-
Q 007255          440 HAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDIS-  517 (611)
Q Consensus       440 ~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~-  517 (611)
                      +.+|++++|  ||+..+++++|+.++|.+||+.++++.+.. .+.++..+++.++|||++||..+|++|+..++++... 
T Consensus       160 ~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~A~~~a~r~~~~~  237 (322)
T 1xwi_A          160 WVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRKVQSA  237 (322)
T ss_dssp             TTSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTCTTCCHHHHHHHHHHHHTHHHHHHHHC
T ss_pred             ccCCHHHHh--hcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999  999999999999999999999999887664 6788999999999999999999999999999887531 


Q ss_pred             ----------------------------------------------cccccHHHHHHHHhhcCCCCCHHHHHHHHHHhhc
Q 007255          518 ----------------------------------------------ATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKS  551 (611)
Q Consensus       518 ----------------------------------------------~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  551 (611)
                                                                    ..+|+..||..|+.+++|+++.++++.|++|.+.
T Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~df~~al~~~~ps~~~~~~~~~~~~~~~  317 (322)
T 1xwi_A          238 THFKKVRGPSRADPNHLVDDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMSDMLRSLSNTKPTVNEHDLLKLKKFTED  317 (322)
T ss_dssp             SEEEEEEEECSSCTTSEEEEEEEECCSSSTTEEECCGGGSCGGGBCCCCBCHHHHHHHHHTCCCSCCHHHHHHHHHHHHT
T ss_pred             hhhhhhccccccccccccccccccccccccchhhccccccccccccCCCcCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Confidence                                                          1368999999999999999999999999999876


Q ss_pred             C
Q 007255          552 Q  552 (611)
Q Consensus       552 ~  552 (611)
                      .
T Consensus       318 ~  318 (322)
T 1xwi_A          318 F  318 (322)
T ss_dssp             T
T ss_pred             H
Confidence            5

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=6.4e-39  Score=334.56  Aligned_cols=248  Identities=31%  Similarity=0.518  Sum_probs=223.7

Q ss_pred             cccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255            5 GRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus         5 ~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      +.+.+.+++.|   +||+|++++|+.|.+.+..|+.+++.+...|+++|+++|||||||||||++|+++|++++.+++.+
T Consensus       161 ~~~~~~p~v~~---~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v  237 (428)
T 4b4t_K          161 MGENEKPDVTY---ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRV  237 (428)
T ss_dssp             CEEESSCSCCG---GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEE
T ss_pred             ccCCCCCCCCH---HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEE
Confidence            44566777778   899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC----CchhhHHHHHHHHHHHhcCCCCCCCC
Q 007255           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSV  160 (611)
Q Consensus        85 ~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~----~~~~~~~~~~~ll~~l~~~~~~~~~~  160 (611)
                      +++++.+.+.|+++..++.+|..+...    .|||+||||+|.+++.+..    ......+++.+|++.||+....    
T Consensus       238 ~~~~l~~~~~Ge~e~~ir~lF~~A~~~----aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~----  309 (428)
T 4b4t_K          238 NGSEFVHKYLGEGPRMVRDVFRLAREN----APSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQS----  309 (428)
T ss_dssp             EGGGTCCSSCSHHHHHHHHHHHHHHHT----CSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSS----
T ss_pred             ecchhhccccchhHHHHHHHHHHHHHc----CCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCC----
Confidence            999999999999999999999998865    4999999999999987632    2223457889999999986543    


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEcc-CCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHH
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVT-VPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCRE  239 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~-~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~  239 (611)
                      .+|+||+|||.++.+||+++|+|||+..|+|| +|+.++|..||+.++.+..+..+.++..+|..|+||+|+||.++|++
T Consensus       310 ~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~dl~~lA~~t~G~sgadi~~l~~e  389 (428)
T 4b4t_K          310 TNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQE  389 (428)
T ss_dssp             CSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCCHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             CCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHHCCCCCHHHHHHHHHH
Confidence            36999999999999999999999999999997 79999999999999999998888999999999999999999999999


Q ss_pred             HHHHHhhhcccccccccccchhHHHHHHHHhc
Q 007255          240 ATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (611)
Q Consensus       240 a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~  271 (611)
                      |...++++..        ..++.+||..|...
T Consensus       390 A~~~a~r~~~--------~~i~~~d~~~A~~~  413 (428)
T 4b4t_K          390 AGLRAVRKNR--------YVILQSDLEEAYAT  413 (428)
T ss_dssp             HHHHHHHTTC--------SSBCHHHHHHHHHH
T ss_pred             HHHHHHHCCC--------CCCCHHHHHHHHHH
Confidence            9999987643        25889999998764

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=100.00  E-value=3e-39  Score=322.34  Aligned_cols=257  Identities=42%  Similarity=0.752  Sum_probs=216.7

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ..|.++|+||+|++++++.|.+.+.+|+.++..+..+++.+++|++|+||||||||++++++|.+++..++.+++.++.+
T Consensus         3 ~~~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~   82 (274)
T 2x8a_A            3 TVPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLN   82 (274)
T ss_dssp             ---------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCS
T ss_pred             CCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHh
Confidence            45788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      +|.|+.+..+..+|..++...|+++|+||+|.++..++...   .....++.++++..|++......++++++||+|+.+
T Consensus        83 ~~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~---~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~L  159 (274)
T 2x8a_A           83 MYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRE---TGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDII  159 (274)
T ss_dssp             STTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC------------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGS
T ss_pred             hhhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCc---chHHHHHHHHHHHhhhcccccCCEEEEeecCChhhC
Confidence            99999999999999999889999999999999887654321   122356789999999999888889999999999999


Q ss_pred             chhccCCCCccceeecCCCCHHHHHHHHHHHhcC---CCCCCcccHHHHHHhC--CCCCHHHHHHHHHHHHHHHHHhhcc
Q 007255          443 DAALMRPGRFDLVLYVPPPDLEARHEILRVHTRN---MKVGDDVDLRSIAEET--ELFTGAELEGLCREAGIVALREDIS  517 (611)
Q Consensus       443 d~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~---~~~~~~~~~~~la~~~--~g~s~~~i~~~~~~a~~~a~~~~~~  517 (611)
                      |++++|||||++.|+++.|+.++|.+||+.++++   .+...+++++.+|..+  +||||+||.++|++|+..|+++.+.
T Consensus       160 D~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~~~~~~g~sgadl~~l~~~a~~~a~~~~~~  239 (274)
T 2x8a_A          160 DPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQEMA  239 (274)
T ss_dssp             CHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHTCSGGGSCCHHHHHHHHHHHHHHHHHHHC-
T ss_pred             CHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHHhhccCCcCHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999988854   3456789999999975  4999999999999999999887542


Q ss_pred             ---------cccccHHHHHHHHhhcCCCCCHHHH
Q 007255          518 ---------ATAVRNRHFQTVKDSLKPALTKEEI  542 (611)
Q Consensus       518 ---------~~~i~~~~~~~~l~~~~~~~~~~~~  542 (611)
                               ...|+..||..|+.+++|+++.++.
T Consensus       240 ~~~~~~~~~~~~i~~~df~~al~~~~ps~~~~~~  273 (274)
T 2x8a_A          240 RQKSGNEKGELKVSHKHFEEAFKKVRSSISKKDQ  273 (274)
T ss_dssp             ----------CCBCHHHHHHHHTTCCCCC-----
T ss_pred             hccccccccCCeecHHHHHHHHHHhcCCCChhhc
Confidence                     2369999999999999999887763

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=100.00  E-value=3.2e-39  Score=331.10  Aligned_cols=268  Identities=34%  Similarity=0.602  Sum_probs=239.7

Q ss_pred             cccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecch
Q 007255          279 GVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (611)
Q Consensus       279 ~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~  358 (611)
                      .+....|.++|++|+|++.+++.|.+.+.+|+.++..+.. +..+++++|||||||||||++|+++|++++.+++.++++
T Consensus         7 ~~~~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~-~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~   85 (322)
T 3eie_A            7 AILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSS   85 (322)
T ss_dssp             CSEEECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCT-TCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHH
T ss_pred             ceeecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhc-CCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchH
Confidence            3445678899999999999999999999999999988876 456788999999999999999999999999999999999


Q ss_pred             hhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-CCCCeEEEEecC
Q 007255          359 ELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-QAKGILVLAATN  437 (611)
Q Consensus       359 ~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-~~~~~~vI~~tn  437 (611)
                      ++.++|.|..+..++.+|..++...|+||||||+|.+.++++..   ......++.++|+..|+++. ...+++||+|||
T Consensus        86 ~l~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn  162 (322)
T 3eie_A           86 DLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG---ESEASRRIKTELLVQMNGVGNDSQGVLVLGATN  162 (322)
T ss_dssp             HHHTTTGGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC---------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEES
T ss_pred             HHhhcccchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCC---cchHHHHHHHHHHHHhccccccCCceEEEEecC
Confidence            99999999999999999999999999999999999998876432   23446789999999999874 567899999999


Q ss_pred             CCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhc
Q 007255          438 RPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDI  516 (611)
Q Consensus       438 ~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~  516 (611)
                      .|+.+|++++|  ||+..++++.|+.++|.+||+.++++.+.. .+.++..++..++||+++||..+|++|...++++..
T Consensus       163 ~~~~ld~al~~--Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di~~l~~~a~~~a~r~~~  240 (322)
T 3eie_A          163 IPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQ  240 (322)
T ss_dssp             CGGGSCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHHHHHHHHHTTHHHHHHH
T ss_pred             ChhhCCHHHHc--ccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999  999999999999999999999999887654 667899999999999999999999999999988764


Q ss_pred             cc-----------------------------------------ccccHHHHHHHHhhcCCCCCHHHHHHHHHHhhcC
Q 007255          517 SA-----------------------------------------TAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKSQ  552 (611)
Q Consensus       517 ~~-----------------------------------------~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  552 (611)
                      ..                                         .+|+.+||..|++.++|+++.+++..|++|.+..
T Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~it~~df~~al~~~~ps~~~~~~~~~~~~~~~~  317 (322)
T 3eie_A          241 SATHFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTVNEDDLLKQEQFTRDF  317 (322)
T ss_dssp             HCEEEEECC----CCCCEEECCSSCTTEEEEEGGGSCSSCBCCCCCCHHHHHHHHHHSCCSSCTTHHHHHHHHHHHH
T ss_pred             hhhhhhhhccccccccccccccccccccccccccccccccccCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHHh
Confidence            32                                         4699999999999999999999999999998764

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=100.00  E-value=1.7e-38  Score=329.26  Aligned_cols=271  Identities=33%  Similarity=0.596  Sum_probs=230.6

Q ss_pred             ccccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          276 ITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       276 ~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ....+....+.++|++|+|++.+++.|.+.+.+|+.++..+.. +..+++++|||||||||||++|+++|++++.+++.+
T Consensus        37 ~~~~~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v  115 (355)
T 2qp9_X           37 LSSAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSV  115 (355)
T ss_dssp             ----------CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCS-SCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEE
T ss_pred             HhhhhcccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhc-CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEe
Confidence            3344455678899999999999999999999999999998886 567788999999999999999999999999999999


Q ss_pred             cchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC-CCCeEEEE
Q 007255          356 SGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ-AKGILVLA  434 (611)
Q Consensus       356 ~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~~~vI~  434 (611)
                      +++++.++|.|..+..++.+|..++...|+||||||+|.+.+.++..   ......++.++|+..|+++.. ..+++||+
T Consensus       116 ~~~~l~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~---~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~  192 (355)
T 2qp9_X          116 SSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG---ESEASRRIKTELLVQMNGVGNDSQGVLVLG  192 (355)
T ss_dssp             EHHHHHSCC---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC---------CTHHHHHHHHHHHHHHHCC---CCEEEEE
T ss_pred             eHHHHhhhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCC---cchHHHHHHHHHHHHhhcccccCCCeEEEe
Confidence            99999999999999999999999999999999999999998776432   234567889999999998753 57899999


Q ss_pred             ecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 007255          435 ATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALR  513 (611)
Q Consensus       435 ~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~  513 (611)
                      +||.|+.+|++++|  ||+..+++++|+.++|.+||+.++++.+.. .+.+++.|++.++||+++||.++|++|+..|++
T Consensus       193 atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~l~~~A~~~a~~  270 (355)
T 2qp9_X          193 ATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIR  270 (355)
T ss_dssp             EESCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHH
T ss_pred             ecCCcccCCHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            99999999999999  999999999999999999999999887653 677899999999999999999999999999998


Q ss_pred             hhcc-----------------------------------------cccccHHHHHHHHhhcCCCCCHHHHHHHHHHhhcC
Q 007255          514 EDIS-----------------------------------------ATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKSQ  552 (611)
Q Consensus       514 ~~~~-----------------------------------------~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  552 (611)
                      +...                                         ..+|+..||..|+..++|+++.++++.|++|.+..
T Consensus       271 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~df~~Al~~~~ps~~~~~~~~~~~~~~~~  350 (355)
T 2qp9_X          271 KIQSATHFKDVSTEDDETRKLTPSSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTVNEDDLLKQEQFTRDF  350 (355)
T ss_dssp             HHHHCSEEEECCC-----CCEEEECTTSSSEEECCGGGSCGGGBCCCCBCHHHHHHHHHHSCCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHhhhhhhhccccccccccCcCCccccchhhcccccccccccccCCccHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence            7421                                         23599999999999999999999999999998875

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=100.00  E-value=1.1e-37  Score=332.44  Aligned_cols=271  Identities=35%  Similarity=0.600  Sum_probs=230.8

Q ss_pred             ccccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-CCcEEe
Q 007255          276 ITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-EASFFS  354 (611)
Q Consensus       276 ~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-~~~~~~  354 (611)
                      ....+....|.++|++|+|++.+++.|.+.+.+|+.++..|.. +..+++++||+||||||||++|+++|+++ +.+|+.
T Consensus       120 ~~~~i~~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~  198 (444)
T 2zan_A          120 LQGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFS  198 (444)
T ss_dssp             ----CBCCCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSG-GGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEE
T ss_pred             hhcceeccCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhc-cCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEE
Confidence            3444555678899999999999999999999999998888764 34667899999999999999999999999 899999


Q ss_pred             ecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-CCCCeEEE
Q 007255          355 LSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-QAKGILVL  433 (611)
Q Consensus       355 ~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-~~~~~~vI  433 (611)
                      ++++++.++|.|.++..++.+|..++...|+||||||+|.+.++++..   ......+++++|+..|+++. ...+++||
T Consensus       199 v~~~~l~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~---~~~~~~~~~~~lL~~l~~~~~~~~~v~vI  275 (444)
T 2zan_A          199 ISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSEN---ESEAARRIKTEFLVQMQGVGVDNDGILVL  275 (444)
T ss_dssp             ECCC---------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCC---CCGGGHHHHHHHHTTTTCSSCCCSSCEEE
T ss_pred             EeHHHHHhhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCc---cccHHHHHHHHHHHHHhCcccCCCCEEEE
Confidence            999999999999999999999999999999999999999998876543   23456789999999999875 46789999


Q ss_pred             EecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 007255          434 AATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVAL  512 (611)
Q Consensus       434 ~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~  512 (611)
                      +|||.|+.+|++++|  ||+..+++++|+.++|..||+.++.+.+.. .+.++..|+..++|||++||..+|++|+..++
T Consensus       276 ~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~a~~~a~  353 (444)
T 2zan_A          276 GATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDALMQPV  353 (444)
T ss_dssp             EEESCGGGSCHHHHT--TCCEEEECCCCCHHHHHHHHHHHHTTSCEECCHHHHHHHHHHTTTCCHHHHHHHHHHHHTHHH
T ss_pred             ecCCCccccCHHHHh--hcceEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999  999999999999999999999998877653 67889999999999999999999999999998


Q ss_pred             Hhhcc-----------------------------------------------cccccHHHHHHHHhhcCCCCCHHHHHHH
Q 007255          513 REDIS-----------------------------------------------ATAVRNRHFQTVKDSLKPALTKEEIDSY  545 (611)
Q Consensus       513 ~~~~~-----------------------------------------------~~~i~~~~~~~~l~~~~~~~~~~~~~~~  545 (611)
                      ++.+.                                               ..+|+..||..|+..++|+++.++++.|
T Consensus       354 r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~df~~a~~~~~ps~~~~~~~~~  433 (444)
T 2zan_A          354 RKVQSATHFKKVRGPSRADPNCIVNDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMWDMLRSLSSTKPTVNEQDLLKL  433 (444)
T ss_dssp             HHHHHCSEEEEECCBCSSCTTSBCSCEEEEECTTSTTEEECCTTTSCTTCBCCCCEEHHHHHHHHHTCCCSCCHHHHHHH
T ss_pred             HHHHhhhhhhhhccccccccccccccccccCCCCcccchhcccccCchhhccCCccCHHHHHHHHHhCCCCCCHHHHHHH
Confidence            87431                                               1368999999999999999999999999


Q ss_pred             HHHhhcC
Q 007255          546 SSFMKSQ  552 (611)
Q Consensus       546 ~~~~~~~  552 (611)
                      ++|.+..
T Consensus       434 ~~~~~~~  440 (444)
T 2zan_A          434 KKFTEDF  440 (444)
T ss_dssp             HHHTSSC
T ss_pred             HHHHHHH
Confidence            9998654

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=100.00  E-value=2e-35  Score=313.55  Aligned_cols=248  Identities=42%  Similarity=0.720  Sum_probs=221.9

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      .+.++|++|+|++++++.+.+.+.. +..+..+.+++...++++||+||||||||++|+++|.+++.+|+.++++++...
T Consensus        10 ~~~~~f~di~G~~~~~~~l~e~v~~-l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~   88 (476)
T 2ce7_A           10 NKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVEL   88 (476)
T ss_dssp             SCCCCGGGCCSCHHHHHHHHHHHHH-HHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTC
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHH-hhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHH
Confidence            4577899999999999999998876 677888999999999999999999999999999999999999999999999999


Q ss_pred             cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccc
Q 007255          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAID  443 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld  443 (611)
                      |.|.....++.+|..++...|+||||||+|.+..+++....+......+.+++|+..|+++....+++||++||+|+.+|
T Consensus        89 ~~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld  168 (476)
T 2ce7_A           89 FVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILD  168 (476)
T ss_dssp             CTTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSC
T ss_pred             HhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhc
Confidence            99999999999999999999999999999999887754333334455688999999999887778999999999999999


Q ss_pred             hhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccH
Q 007255          444 AALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRN  523 (611)
Q Consensus       444 ~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~  523 (611)
                      ++++|||||+..+.++.|+.++|.+|++.++++.++..++++..++..+.||+++||.++|++|+..+.++.  ...|+.
T Consensus       169 ~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~l~~la~~t~G~sgadL~~lv~~Aal~A~~~~--~~~I~~  246 (476)
T 2ce7_A          169 PALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREG--RDKITM  246 (476)
T ss_dssp             GGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT--CSSBCH
T ss_pred             hhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhhHHHHHHhcCCCcHHHHHHHHHHHHHHHHHcC--CCeecH
Confidence            999999999999999999999999999999999888888999999999999999999999999999887653  457999


Q ss_pred             HHHHHHHhhcC
Q 007255          524 RHFQTVKDSLK  534 (611)
Q Consensus       524 ~~~~~~l~~~~  534 (611)
                      .||..++.++.
T Consensus       247 ~dl~~al~~v~  257 (476)
T 2ce7_A          247 KDFEEAIDRVI  257 (476)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHh
Confidence            99999998774

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=100.00  E-value=1.6e-34  Score=291.48  Aligned_cols=250  Identities=43%  Similarity=0.730  Sum_probs=229.2

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ..|..+|++++|++.+++.+.+.+..++.++..+.+++..+++++||+||||||||++|+++|.+++.+++.++++++..
T Consensus        10 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~   89 (285)
T 3h4m_A           10 ERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVK   89 (285)
T ss_dssp             SSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCC
T ss_pred             CCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHH
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      .+.|..+..++.+|..++...|+||||||+|.+.+++............+.+..++..+++.....+++||+|||.++.+
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l  169 (285)
T 3h4m_A           90 KFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDIL  169 (285)
T ss_dssp             CSTTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGB
T ss_pred             hccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhc
Confidence            99999999999999999999999999999999988776544444444567778888888888788899999999999999


Q ss_pred             chhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccccccc
Q 007255          443 DAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVR  522 (611)
Q Consensus       443 d~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~  522 (611)
                      |++++|++||+..+.++.|+.++|.+|++.+++......+.++..++..+.||++++|+.+|+.|...|..+.  ...|+
T Consensus       170 ~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~a~~~~--~~~I~  247 (285)
T 3h4m_A          170 DPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIREL--RDYVT  247 (285)
T ss_dssp             CHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHHCTTCCHHHHHHHHHHHHHHHHHTT--CSSBC
T ss_pred             CHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhc--cCcCC
Confidence            9999999999999999999999999999999998888888999999999999999999999999999998775  45699


Q ss_pred             HHHHHHHHhhcC
Q 007255          523 NRHFQTVKDSLK  534 (611)
Q Consensus       523 ~~~~~~~l~~~~  534 (611)
                      .+|+..++..+.
T Consensus       248 ~~d~~~al~~~~  259 (285)
T 3h4m_A          248 MDDFRKAVEKIM  259 (285)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999997663

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=100.00  E-value=3e-34  Score=284.83  Aligned_cols=249  Identities=40%  Similarity=0.678  Sum_probs=218.9

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ..+..+|++++|++.+++.+.+.+.+ +.++..+.+++...+++++|+||||||||++|+++|.+++.+++.++++++..
T Consensus         5 ~~~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~   83 (257)
T 1lv7_A            5 DQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVE   83 (257)
T ss_dssp             CSSCCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTT
T ss_pred             cCCCCCHHHhcCcHHHHHHHHHHHHH-HhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHH
Confidence            45678999999999999999988765 67777788888888999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      .+.|..+..++.+|..+....|+++||||+|.+...+............+.++.++..++++....+++||++||.|+.+
T Consensus        84 ~~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  163 (257)
T 1lv7_A           84 MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVL  163 (257)
T ss_dssp             SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTS
T ss_pred             HhhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCEEEEEeeCCchhC
Confidence            99999999999999999988899999999999987765433333344457889999999988888899999999999999


Q ss_pred             chhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccccccc
Q 007255          443 DAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVR  522 (611)
Q Consensus       443 d~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~  522 (611)
                      |++++|+|||+..+.++.|+.++|.+|++.++++.++..+.++..++..+.||+++||.++|++|...|..+.  ...|+
T Consensus       164 ~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~~~~~la~~~~G~~~~dl~~l~~~a~~~a~~~~--~~~i~  241 (257)
T 1lv7_A          164 DPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGN--KRVVS  241 (257)
T ss_dssp             CGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT--CSSBC
T ss_pred             CHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCccccHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhC--CCccc
Confidence            9999999999999999999999999999999998888888899999999999999999999999999988764  46799


Q ss_pred             HHHHHHHHhhcC
Q 007255          523 NRHFQTVKDSLK  534 (611)
Q Consensus       523 ~~~~~~~l~~~~  534 (611)
                      .+|+..++..+.
T Consensus       242 ~~~~~~a~~~~~  253 (257)
T 1lv7_A          242 MVEFEKAKDKIM  253 (257)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999987664

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=100.00  E-value=7.4e-34  Score=324.44  Aligned_cols=439  Identities=18%  Similarity=0.244  Sum_probs=295.8

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~   85 (611)
                      ..+++++|.++.++.+.+.+..             ..++++||+||||||||++++++++.+          +..++.++
T Consensus       183 ~~~d~~iGr~~~i~~l~~~l~~-------------~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~  249 (758)
T 1r6b_X          183 GGIDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLD  249 (758)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECC
T ss_pred             CCCCCccCCHHHHHHHHHHHhc-------------cCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEc
Confidence            4678999999999998887632             256799999999999999999999987          56677777


Q ss_pred             ccccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        86 ~~~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      ...+.  ..+.|..+..++.++..+...    .++||||||+|.+.+.+.... ......+.|...++.        +.+
T Consensus       250 ~~~l~~~~~~~g~~e~~l~~~~~~~~~~----~~~iL~IDEi~~l~~~~~~~~-~~~~~~~~L~~~l~~--------~~~  316 (758)
T 1r6b_X          250 IGSLLAGTKYRGDFEKRFKALLKQLEQD----TNSILFIDEIHTIIGAGAASG-GQVDAANLIKPLLSS--------GKI  316 (758)
T ss_dssp             CC---CCCCCSSCHHHHHHHHHHHHSSS----SCEEEEETTTTTTTTSCCSSS-CHHHHHHHHSSCSSS--------CCC
T ss_pred             HHHHhccccccchHHHHHHHHHHHHHhc----CCeEEEEechHHHhhcCCCCc-chHHHHHHHHHHHhC--------CCe
Confidence            77665  356678888888888776532    479999999999987654321 122233333333321        247


Q ss_pred             EEEEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCC----CCC-CcccHHHHHHhccCCc----
Q 007255          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV----PLD-ANVDLEAIATSCNGYV----  229 (611)
Q Consensus       164 ~ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~----~~~-~~~~~~~la~~~~g~~----  229 (611)
                      .+|++||.++     .+|+++.+  ||. .+.++.|+.+++.+|++.+...+    ... .+..+..++..+.+|.    
T Consensus       317 ~~I~at~~~~~~~~~~~d~aL~~--Rf~-~i~v~~p~~~e~~~il~~l~~~~~~~~~v~~~~~al~~~~~~s~~~i~~~~  393 (758)
T 1r6b_X          317 RVIGSTTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRH  393 (758)
T ss_dssp             EEEEEECHHHHHCCCCCTTSSGG--GEE-EEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSC
T ss_pred             EEEEEeCchHHhhhhhcCHHHHh--Cce-EEEcCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhccccc
Confidence            8888888753     56899998  997 79999999999999998766432    111 1223666666666653    


Q ss_pred             -cccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhccCCccccccc-------ccCCCcccccccchhHHHHH
Q 007255          230 -GADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVT-------VEIPKVTWEDIGGLRDLKKK  301 (611)
Q Consensus       230 -~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~~~~~~-------~~~~~~~~~~i~g~~~~k~~  301 (611)
                       ...+..++++|+........    ......++.+++..+.............       ......-.++++|++.+++.
T Consensus       394 lp~~~i~lld~a~~~~~~~~~----~~~~~~v~~~di~~~~~~~~~ip~~~~~~~~~~~l~~l~~~l~~~v~g~~~~~~~  469 (758)
T 1r6b_X          394 LPDKAIDVIDEAGARARLMPV----SKRKKTVNVADIESVVARIARIPEKSVSQSDRDTLKNLGDRLKMLVFGQDKAIEA  469 (758)
T ss_dssp             TTHHHHHHHHHHHHHHHHSSS----CCCCCSCCHHHHHHHHHHHSCCCCCCSSSSHHHHHHHHHHHHTTTSCSCHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhcccc----cccCCccCHHHHHHHHHHhcCCCccccchhHHHHHHHHHHHHHhhccCHHHHHHH
Confidence             34566777777644322111    1122346777877776543211100000       00001112357888888888


Q ss_pred             HHHHhhccCCChhHHhhcCC----CCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc------------cc
Q 007255          302 LQQAVEWPIKHSTAFSRLGI----SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM------------YV  365 (611)
Q Consensus       302 l~~~~~~~~~~~~~~~~~~~----~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~------------~~  365 (611)
                      +...+..        .+.|.    +|..++||+||||||||++|+++|..++.+++.++++++...            |+
T Consensus       470 l~~~i~~--------~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~~~l~g~~~g~~  541 (758)
T 1r6b_X          470 LTEAIKM--------ARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYV  541 (758)
T ss_dssp             HHHHHHH--------HHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCCSCSH
T ss_pred             HHHHHHH--------HhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhHhhhcCCCCCCc
Confidence            8776653        12233    344579999999999999999999999999999999987653            44


Q ss_pred             cchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC---------CCCeEEEEec
Q 007255          366 GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ---------AKGILVLAAT  436 (611)
Q Consensus       366 g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~---------~~~~~vI~~t  436 (611)
                      |..+.  ..+....+..+++||||||+|.+              ...+++.|++.|+...-         ..+++||+||
T Consensus       542 g~~~~--~~l~~~~~~~~~~vl~lDEi~~~--------------~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~ts  605 (758)
T 1r6b_X          542 GFDQG--GLLTDAVIKHPHAVLLLDEIEKA--------------HPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTT  605 (758)
T ss_dssp             HHHHT--THHHHHHHHCSSEEEEEETGGGS--------------CHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEE
T ss_pred             Ccccc--chHHHHHHhCCCcEEEEeCcccc--------------CHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEec
Confidence            43222  22344555667789999999976              35688999999874211         1468899999


Q ss_pred             CCCc-------------------------ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCC---------CC-CC
Q 007255          437 NRPH-------------------------AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNM---------KV-GD  481 (611)
Q Consensus       437 n~~~-------------------------~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~---------~~-~~  481 (611)
                      |.+.                         .++|++++  ||+.+|.|++|+.+++..|++.++..+         .+ .+
T Consensus       606 N~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~--R~~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~  683 (758)
T 1r6b_X          606 NAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVS  683 (758)
T ss_dssp             CSSCC-----------------CHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEEC
T ss_pred             CcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHh--hCCcceeeCCCCHHHHHHHHHHHHHHHHHHHHHCCcEEEeC
Confidence            9854                         56788888  999999999999999999999776532         11 12


Q ss_pred             cccHHHHHHhC--CCCCHHHHHHHHHHHHHHHHH
Q 007255          482 DVDLRSIAEET--ELFTGAELEGLCREAGIVALR  513 (611)
Q Consensus       482 ~~~~~~la~~~--~g~s~~~i~~~~~~a~~~a~~  513 (611)
                      +..++.|+...  .+++.+++.++++.+...++-
T Consensus       684 ~~a~~~l~~~~~~~~~g~R~l~~~i~~~~~~~l~  717 (758)
T 1r6b_X          684 QEARNWLAEKGYDRAMGARPMARVIQDNLKKPLA  717 (758)
T ss_dssp             HHHHHHHHHHHCBTTTBTTTHHHHHHHHHTHHHH
T ss_pred             HHHHHHHHHhCCCcCCCchHHHHHHHHHHHHHHH
Confidence            33456666543  245567888877766655443

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=100.00  E-value=6e-34  Score=324.57  Aligned_cols=429  Identities=17%  Similarity=0.238  Sum_probs=272.1

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~   85 (611)
                      ..+++++|.++.++.+.+.+..             ..++++||+||||||||++|+++|+.+          +..++.++
T Consensus       177 ~~ld~iiG~~~~i~~l~~~l~~-------------~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~  243 (758)
T 3pxi_A          177 DSLDPVIGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLD  243 (758)
T ss_dssp             SCSCCCCCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-
T ss_pred             CCCCCccCchHHHHHHHHHHhC-------------CCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEec
Confidence            4578999999999999887643             245789999999999999999999997          77788777


Q ss_pred             ccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEE
Q 007255           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVV  165 (611)
Q Consensus        86 ~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~i  165 (611)
                      +   ...+.|+.+..++.+|..+..    ..++|||||     ..         ...++.|+..++.        +.+.+
T Consensus       244 ~---g~~~~G~~e~~l~~~~~~~~~----~~~~iLfiD-----~~---------~~~~~~L~~~l~~--------~~v~~  294 (758)
T 3pxi_A          244 M---GTKYRGEFEDRLKKVMDEIRQ----AGNIILFID-----AA---------IDASNILKPSLAR--------GELQC  294 (758)
T ss_dssp             ------------CTTHHHHHHHHHT----CCCCEEEEC-----C-----------------CCCTTS--------SSCEE
T ss_pred             c---cccccchHHHHHHHHHHHHHh----cCCEEEEEc-----Cc---------hhHHHHHHHHHhc--------CCEEE
Confidence            6   445567777788888888764    358999999     10         1233444444442        25789


Q ss_pred             EEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-----CcccHHHHHHhccC-----Ccc
Q 007255          166 VASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-----ANVDLEAIATSCNG-----YVG  230 (611)
Q Consensus       166 i~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-----~~~~~~~la~~~~g-----~~~  230 (611)
                      |++||..+     .+++++++  ||. .+.|+.|+.+++.+|++.+...+...     .+..+..++..+.+     +.+
T Consensus       295 I~at~~~~~~~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~il~~~~~~~~~~~~~~i~~~al~~~~~~s~~~i~~~~~p  371 (758)
T 3pxi_A          295 IGATTLDEYRKYIEKDAALER--RFQ-PIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLP  371 (758)
T ss_dssp             EEECCTTTTHHHHTTCSHHHH--SEE-EEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTT
T ss_pred             EeCCChHHHHHHhhccHHHHh--hCc-EEEeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccCcCC
Confidence            99999877     78999999  994 79999999999999999877654321     12235555555443     344


Q ss_pred             ccHHHHHHHHHHHHhhhcccccc-----------------------------------------------------cccc
Q 007255          231 ADLEALCREATMSAVKRSSDANE-----------------------------------------------------CAGV  257 (611)
Q Consensus       231 ~dl~~l~~~a~~~a~~r~~~~~~-----------------------------------------------------~~~~  257 (611)
                      .....++++|+..+..+......                                                     ....
T Consensus       372 ~~ai~ll~~a~~~~~~~~~~~p~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~  451 (758)
T 3pxi_A          372 DKAIDLIDEAGSKVRLRSFTTPPNLKELEQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLREQVEDTKKSWKEKQGQEN  451 (758)
T ss_dssp             HHHHHHHHHHHHHHHHHTTC--CCTHHHHHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHSGGGHHHHCC-
T ss_pred             cHHHHHHHHHHHHHHhhccCCCcchhhHHHHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence            55556666665433221110000                                                     0001


Q ss_pred             cchhHHHHHHHHhccCCcccccc-c------ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCccee
Q 007255          258 LSVTMEDWRHARSVVGPSITRGV-T------VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLH  330 (611)
Q Consensus       258 ~~v~~ed~~~a~~~i~~~~~~~~-~------~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~  330 (611)
                      ..++.+++............... .      ......-.++++|++.+++.+.+.+........    ...+|..++||+
T Consensus       452 ~~v~~~~i~~~v~~~~~ip~~~~~~~~~~~l~~l~~~l~~~viGq~~a~~~l~~~i~~~~~~~~----~~~~p~~~~Ll~  527 (758)
T 3pxi_A          452 SEVTVDDIAMVVSSWTGVPVSKIAQTETDKLLNMENILHSRVIGQDEAVVAVAKAVRRARAGLK----DPKRPIGSFIFL  527 (758)
T ss_dssp             --CCTHHHHHHHHTTC-------CHHHHSCC-CHHHHHHTTSCSCHHHHHHHHHHHHHHTTTCS----CTTSCSEEEEEE
T ss_pred             cccCHHHHHHHHHHHhCCChHHhhHHHHHHHHHHHHHHhCcCcChHHHHHHHHHHHHHHHcccC----CCCCCceEEEEE
Confidence            11222222222221110000000 0      000011135688999999888888764221100    011223369999


Q ss_pred             CCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCc
Q 007255          331 GPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSI  407 (611)
Q Consensus       331 Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~  407 (611)
                      ||||||||++|+++|..+   +.+++.++++++...+...    ...+....+...++||||||||.+            
T Consensus       528 Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~~~~----~~~l~~~~~~~~~~vl~lDEi~~~------------  591 (758)
T 3pxi_A          528 GPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTS----GGQLTEKVRRKPYSVVLLDAIEKA------------  591 (758)
T ss_dssp             SCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSCCCC-------CHHHHHHCSSSEEEEECGGGS------------
T ss_pred             CCCCCCHHHHHHHHHHHhcCCCcceEEEechhcccccccc----cchhhHHHHhCCCeEEEEeCcccc------------
Confidence            999999999999999998   7899999999998876655    122334455567789999999876            


Q ss_pred             chhHHHHHHHHHHhcCCC---------CCCCeEEEEecCCCcc------------cchhccCCCCccceeecCCCCHHHH
Q 007255          408 TVGERLLSTLLTEMDGLE---------QAKGILVLAATNRPHA------------IDAALMRPGRFDLVLYVPPPDLEAR  466 (611)
Q Consensus       408 ~~~~~~~~~ll~~l~~~~---------~~~~~~vI~~tn~~~~------------ld~al~r~gRf~~~i~~~~p~~~~r  466 (611)
                        ...+++.|++.|+...         ...++++|+|||.+..            ++|++++  ||+.+|.|++|+.+++
T Consensus       592 --~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~~~~~~~~f~p~l~~--Rl~~~i~~~~l~~~~~  667 (758)
T 3pxi_A          592 --HPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKVMGELKRAFRPEFIN--RIDEIIVFHSLEKKHL  667 (758)
T ss_dssp             --CHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHHHHHHHHHHSCHHHHT--TSSEEEECC--CHHHH
T ss_pred             --CHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHHHHHHHhhCCHHHHh--hCCeEEecCCCCHHHH
Confidence              3567889999887522         2346799999997553            6778887  9999999999999999


Q ss_pred             HHHHHHHhcCC-------CCC---CcccHHHHHHh--CCCCCHHHHHHHHHHHHHHHHH
Q 007255          467 HEILRVHTRNM-------KVG---DDVDLRSIAEE--TELFTGAELEGLCREAGIVALR  513 (611)
Q Consensus       467 ~~il~~~~~~~-------~~~---~~~~~~~la~~--~~g~s~~~i~~~~~~a~~~a~~  513 (611)
                      ..|++.++..+       ...   ++..++.|++.  ...+..++++++++.+...++-
T Consensus       668 ~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~i~~~v~~~l~  726 (758)
T 3pxi_A          668 TEIVSLMSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDLEYGARPLRRAIQKHVEDRLS  726 (758)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHGGGCCTTTTTTTHHHHHHHHTHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCeEEECHHHHHHHHHhCCCCCCCChHHHHHHHHHHHHHHH
Confidence            99998765432       111   23345666653  2345667888888766555443

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=100.00  E-value=4.6e-34  Score=305.98  Aligned_cols=249  Identities=44%  Similarity=0.704  Sum_probs=230.5

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~  364 (611)
                      +..+|++|+|++..++.+.+.+..++.+++.|..++..+++++||+||||||||++|+++|++++.+|+.++++++.+.+
T Consensus       199 ~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~  278 (489)
T 3hu3_A          199 NEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL  278 (489)
T ss_dssp             TCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSC
T ss_pred             CCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhh
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccch
Q 007255          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDA  444 (611)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~  444 (611)
                      .|..+..++.+|..+....|++|||||+|.+.+++...   ......++++.|+..|++.....+++||+|||+|+.+|+
T Consensus       279 ~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~---~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~  355 (489)
T 3hu3_A          279 AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT---HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDP  355 (489)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSC---CCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCG
T ss_pred             cchhHHHHHHHHHHHHhcCCcEEEecchhhhccccccc---cchHHHHHHHHHHHHhhccccCCceEEEEecCCccccCH
Confidence            99999999999999999999999999999999876432   234567899999999998888889999999999999999


Q ss_pred             hccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcc-------
Q 007255          445 ALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDIS-------  517 (611)
Q Consensus       445 al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~-------  517 (611)
                      +++|+|||+..++++.|+.++|.+||+.+++.+....+.++..++..+.||+++++..+|++|...+.++...       
T Consensus       356 al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~l~~la~~t~g~s~~dL~~L~~~A~~~a~r~~~~~i~~~~~  435 (489)
T 3hu3_A          356 ALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE  435 (489)
T ss_dssp             GGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTTTTCCTTCS
T ss_pred             HHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHccCCcHHHHHHHHHHHHHHHHHhcccccccccc
Confidence            9999999999999999999999999999999999888999999999999999999999999999999987643       


Q ss_pred             --------cccccHHHHHHHHhhcCCC
Q 007255          518 --------ATAVRNRHFQTVKDSLKPA  536 (611)
Q Consensus       518 --------~~~i~~~~~~~~l~~~~~~  536 (611)
                              ...++.+||..++..++|+
T Consensus       436 ~~~~~~~~~~~vt~edf~~Al~~~~ps  462 (489)
T 3hu3_A          436 TIDAEVMNSLAVTMDDFRWALSQSNPS  462 (489)
T ss_dssp             SCCHHHHHHCCBCHHHHHHHHTSHHHH
T ss_pred             ccchhhcccCcCCHHHHHHHHHhCCch
Confidence                    2358899999999888775

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=100.00  E-value=7.6e-34  Score=288.18  Aligned_cols=265  Identities=35%  Similarity=0.564  Sum_probs=228.0

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      ...++.+|++++|++.+++.+.+.+..+..+++.+..++ .+++++||+||||||||++|+++|.+++.+++.++++++.
T Consensus        13 ~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~   91 (297)
T 3b9p_A           13 EGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLT   91 (297)
T ss_dssp             CCSSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGG-CCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTS
T ss_pred             cCCCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCC-CCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHh
Confidence            345788999999999999999999998888888777655 4578999999999999999999999999999999999999


Q ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCC---CCeEEEEecCC
Q 007255          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA---KGILVLAATNR  438 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~---~~~~vI~~tn~  438 (611)
                      ..+.|..+..++.+|..+....|+||||||+|.+...+....   .....++.+.|+..+++....   .+++||++||.
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~  168 (297)
T 3b9p_A           92 SKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSE---HEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNR  168 (297)
T ss_dssp             SSSCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC--------CCSHHHHHHHHHHHHHCC------CEEEEEEESC
T ss_pred             hcccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCc---chHHHHHHHHHHHHHhcccccCCCCcEEEEeecCC
Confidence            999999999999999999999999999999999987764322   233467888999999876543   57999999999


Q ss_pred             CcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhc-
Q 007255          439 PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDI-  516 (611)
Q Consensus       439 ~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~-  516 (611)
                      |+.+|++++|  ||+..++++.|+.++|..|++.++++.... ++.++..+++.+.||+++++..+|+.|...++++.. 
T Consensus       169 ~~~l~~~l~~--R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~~~g~~~~~l~~l~~~a~~~a~r~~~~  246 (297)
T 3b9p_A          169 PQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDAALEPIRELNV  246 (297)
T ss_dssp             GGGBCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHHTTTCCHHHHHHHHHHHTTHHHHTCC-
T ss_pred             hhhCCHHHHh--hCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999  999999999999999999999888766543 456789999999999999999999999999887642 


Q ss_pred             ---------ccccccHHHHHHHHhhcCCCCCHHHHHHHHHHhhcC
Q 007255          517 ---------SATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKSQ  552 (611)
Q Consensus       517 ---------~~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  552 (611)
                               ....|+.+||..++..++|+++.++++.|++|.+..
T Consensus       247 ~~~~~~~~~~~~~i~~~d~~~a~~~~~~s~~~~~~~~~~~~~~~~  291 (297)
T 3b9p_A          247 EQVKCLDISAMRAITEQDFHSSLKRIRRSVAPQSLNSYEKWSQDY  291 (297)
T ss_dssp             -------CCCCCCCCHHHHHHHTTSCCCSSCHHHHHHHHHHC---
T ss_pred             hhcccccccccCCcCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence                     235799999999999999999999999999997654

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=100.00  E-value=5.2e-34  Score=296.19  Aligned_cols=263  Identities=33%  Similarity=0.606  Sum_probs=229.2

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      .+..+|++|+|++.+++.|.+.+.+|+.++..+.+.+ .+++++||+||||||||++|+++|.+++.+++.++++++...
T Consensus        78 ~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~  156 (357)
T 3d8b_A           78 GPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSK  156 (357)
T ss_dssp             SCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-SCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCS
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhcc-CCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhcc
Confidence            4678999999999999999999999888888776654 567899999999999999999999999999999999999999


Q ss_pred             cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--CCCCeEEEEecCCCcc
Q 007255          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--QAKGILVLAATNRPHA  441 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--~~~~~~vI~~tn~~~~  441 (611)
                      |.|..+..++.+|..++...|+||||||+|.+.+++...   ......+++++|+..+++..  ...+++||+|||.++.
T Consensus       157 ~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~---~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~  233 (357)
T 3d8b_A          157 WVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDG---EHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQE  233 (357)
T ss_dssp             STTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC---------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGG
T ss_pred             ccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCC---cchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhh
Confidence            999999999999999999999999999999998776432   23446788999999999764  3568999999999999


Q ss_pred             cchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhc----
Q 007255          442 IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDI----  516 (611)
Q Consensus       442 ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~----  516 (611)
                      +|++++|  ||+..++++.|+.++|.+|++.+++..... .+.++..+++.++||++++|..+|+.|...++++..    
T Consensus       234 l~~~l~~--Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~t~G~s~~dl~~l~~~a~~~~ir~l~~~~~  311 (357)
T 3d8b_A          234 IDEAARR--RLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIRSLQTADI  311 (357)
T ss_dssp             BCHHHHT--TCCEEEECCCCCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHHHTHHHHHCCC---
T ss_pred             CCHHHHh--hCceEEEeCCcCHHHHHHHHHHHHhhcCCCccHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHhhhhhh
Confidence            9999999  999999999999999999999888765543 456789999999999999999999999998887532    


Q ss_pred             ------ccccccHHHHHHHHhhcCCCCCHHHHHHHHHHhhcC
Q 007255          517 ------SATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKSQ  552 (611)
Q Consensus       517 ------~~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  552 (611)
                            ...+|+..||..++..++|+++.++++.|++|.+..
T Consensus       312 ~~~~~~~~~~i~~~d~~~al~~~~ps~~~~~~~~~~~~~~~~  353 (357)
T 3d8b_A          312 ATITPDQVRPIAYIDFENAFRTVRPSVSPKDLELYENWNKTF  353 (357)
T ss_dssp             -------CCCBCHHHHHHHHHHHGGGCCCCCHHHHHHHHHHH
T ss_pred             ccccccccCCcCHHHHHHHHHhcCCCCCHHHHHHHHHHHHHh
Confidence                  235799999999999999999999999999998753

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=100.00  E-value=2.9e-33  Score=294.40  Aligned_cols=275  Identities=33%  Similarity=0.509  Sum_probs=227.7

Q ss_pred             cCCcccccccccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc
Q 007255          272 VGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS  351 (611)
Q Consensus       272 i~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~  351 (611)
                      +.......+....+.++|++|+|++.+++.+.+.+..+..++..+...+ .+++++||+||||||||++|+++|.+++.+
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~vLL~GppGtGKT~la~aia~~~~~~  175 (389)
T 3vfd_A           97 LANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAESNAT  175 (389)
T ss_dssp             CCTTGGGTTBCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-CCCSEEEEESSTTSCHHHHHHHHHHHTTCE
T ss_pred             HHHHHHhhhhccCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccC-CCCceEEEECCCCCCHHHHHHHHHHhhcCc
Confidence            3444445555667788999999999999999999998888887777665 456899999999999999999999999999


Q ss_pred             EEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC--CCC
Q 007255          352 FFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ--AKG  429 (611)
Q Consensus       352 ~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~  429 (611)
                      |+.++++++.+.|.|..+..++.+|..++...|+||||||||.+++++..   .......++++.|+..|++...  ..+
T Consensus       176 ~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~~~  252 (389)
T 3vfd_A          176 FFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERRE---GEHDASRRLKTEFLIEFDGVQSAGDDR  252 (389)
T ss_dssp             EEEECSCCC-------CHHHHHHHHHHHHHSSSEEEEEETGGGGC-----------CTHHHHHHHHHHHHHHHC-----C
T ss_pred             EEEeeHHHhhccccchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCC---ccchHHHHHHHHHHHHhhcccccCCCC
Confidence            99999999999999999999999999999999999999999999877643   2234467889999999987654  567


Q ss_pred             eEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHH
Q 007255          430 ILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAG  508 (611)
Q Consensus       430 ~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~  508 (611)
                      ++||+|||.++.+|++++|  ||+..++++.|+.++|..||+.++...... .+.++..++..++||++++|..+|+.|.
T Consensus       253 v~vI~atn~~~~l~~~l~~--R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~~g~~~~~l~~L~~~a~  330 (389)
T 3vfd_A          253 VLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDAA  330 (389)
T ss_dssp             EEEEEEESCGGGCCHHHHT--TCCEEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             EEEEEecCCchhcCHHHHc--CcceEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            9999999999999999999  999999999999999999999888765443 4567899999999999999999999999


Q ss_pred             HHHHHhhc----------ccccccHHHHHHHHhhcCCCCCHHHHHHHHHHhhcC
Q 007255          509 IVALREDI----------SATAVRNRHFQTVKDSLKPALTKEEIDSYSSFMKSQ  552 (611)
Q Consensus       509 ~~a~~~~~----------~~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  552 (611)
                      ..++++..          ....|+.+||..++...+|+++.+.++.|++|.+..
T Consensus       331 ~~~~rel~~~~~~~~~~~~~~~i~~~d~~~al~~~~~s~~~~~l~~~~~~~~~~  384 (389)
T 3vfd_A          331 LGPIRELKPEQVKNMSASEMRNIRLSDFTESLKKIKRSVSPQTLEAYIRWNKDF  384 (389)
T ss_dssp             THHHHTSCCC---CCSSSCCCCCCHHHHHHHHHHCCCSSCHHHHHHHHHHHHHC
T ss_pred             HHHHHhhhhhhhhccchhhcCCcCHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence            99988732          234789999999999999999999999999998765

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=100.00  E-value=2.1e-33  Score=299.80  Aligned_cols=248  Identities=41%  Similarity=0.697  Sum_probs=221.7

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~  364 (611)
                      +.++|++|+|+++++..+.+.+.. +..+..+..++...+++++|+||||||||++|+++|.+++.+++.++++++...+
T Consensus        26 ~~~~f~dv~G~~~~k~~l~~lv~~-l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~  104 (499)
T 2dhr_A           26 PKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMF  104 (499)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHH-HHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSC
T ss_pred             CCCCHHHcCCcHHHHHHHHHHHHH-hhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhh
Confidence            788999999999999999998775 6677788888999999999999999999999999999999999999999999999


Q ss_pred             ccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccch
Q 007255          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDA  444 (611)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~  444 (611)
                      .|.....++.+|+.++...|+|+||||+|.+..+++...........+.+++|+..|++......+++|++||+|+.+|+
T Consensus       105 ~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAatn~p~~LD~  184 (499)
T 2dhr_A          105 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDP  184 (499)
T ss_dssp             TTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECCSCGGGSCT
T ss_pred             hhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEecCChhhcCc
Confidence            99988899999999887889999999999998776532222234456788999999999888888999999999999999


Q ss_pred             hccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHH
Q 007255          445 ALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNR  524 (611)
Q Consensus       445 al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~  524 (611)
                      +++|||||+..|.++.|+.++|.+||+.++++.++..++++..+|..+.||+++||+++|++|+..+.++.  ...|+.+
T Consensus       185 aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv~l~~lA~~t~G~~gadL~~lv~~Aa~~A~~~~--~~~It~~  262 (499)
T 2dhr_A          185 ALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG--RRKITMK  262 (499)
T ss_dssp             TTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSSTTHHHHTTSCSCCHHHHHHHHHHHHHHHTTTC--CSSCCSH
T ss_pred             ccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhC--CCccCHH
Confidence            99999999999999999999999999999988888888999999999999999999999999988876542  4579999


Q ss_pred             HHHHHHhhcCC
Q 007255          525 HFQTVKDSLKP  535 (611)
Q Consensus       525 ~~~~~l~~~~~  535 (611)
                      |+..++.++.+
T Consensus       263 dl~~al~~v~~  273 (499)
T 2dhr_A          263 DLEEAADRVMM  273 (499)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHhc
Confidence            99999987643

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=100.00  E-value=5.2e-33  Score=276.67  Aligned_cols=248  Identities=38%  Similarity=0.632  Sum_probs=196.0

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~  364 (611)
                      |.++|++++|++.+++.+.+.+.+ +.++..+..+|..+++++||+||||||||++|+++|++++.+++.++++++...+
T Consensus         1 ~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~   79 (262)
T 2qz4_A            1 MGVSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVI   79 (262)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHH-HHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSS
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhc
Confidence            467899999999999999998876 7778888888999999999999999999999999999999999999999999999


Q ss_pred             ccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCC-cchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccc
Q 007255          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTS-ITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAID  443 (611)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld  443 (611)
                      .+.....++.+|..+....|+||||||+|.+.++++...... .......++.++..+++.....++++|+|||.++.+|
T Consensus        80 ~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld  159 (262)
T 2qz4_A           80 GGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILD  159 (262)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGG
T ss_pred             cChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcC
Confidence            999999999999999988999999999999987764322111 1223466788899999877778999999999999999


Q ss_pred             hhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCccc--HHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccc
Q 007255          444 AALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVD--LRSIAEETELFTGAELEGLCREAGIVALREDISATAV  521 (611)
Q Consensus       444 ~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~--~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i  521 (611)
                      ++++|+|||+..++++.|+.++|.+|++.+++......+.+  +..++..+.||++++|..+|+.|...|..+.  ...|
T Consensus       160 ~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~~a~~~a~~~~--~~~i  237 (262)
T 2qz4_A          160 GALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAREG--HTSV  237 (262)
T ss_dssp             SGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHHHHHTC----------C
T ss_pred             HHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcC--CCCC
Confidence            99999999999999999999999999999888777654443  4789999999999999999999998887653  4568


Q ss_pred             cHHHHHHHHhhcCC
Q 007255          522 RNRHFQTVKDSLKP  535 (611)
Q Consensus       522 ~~~~~~~~l~~~~~  535 (611)
                      +.+|+..++.++.+
T Consensus       238 ~~~d~~~a~~~~~~  251 (262)
T 2qz4_A          238 HTLNFEYAVERVLA  251 (262)
T ss_dssp             CBCCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhcc
Confidence            88888888876543

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=100.00  E-value=2.1e-32  Score=293.07  Aligned_cols=273  Identities=47%  Similarity=0.780  Sum_probs=229.6

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~   96 (611)
                      .+++|+|++.+++.|.+.+..++..++.+..+|..++.++||+||||||||+++++++++++.+++.+++..+...+.|.
T Consensus       202 ~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~g~  281 (489)
T 3hu3_A          202 GYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE  281 (489)
T ss_dssp             CGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCTTH
T ss_pred             CHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhhcch
Confidence            45889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccc
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l  175 (611)
                      ....++.+|..+...    .|++|||||+|.+.+.++. ..+....++..|+..++....    ..++++|++||.++.+
T Consensus       282 ~~~~~~~~f~~A~~~----~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~----~~~v~vIaaTn~~~~L  353 (489)
T 3hu3_A          282 SESNLRKAFEEAEKN----APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQ----RAHVIVMAATNRPNSI  353 (489)
T ss_dssp             HHHHHHHHHHHHHHT----CSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCT----TSCEEEEEEESCGGGB
T ss_pred             hHHHHHHHHHHHHhc----CCcEEEecchhhhccccccccchHHHHHHHHHHHHhhcccc----CCceEEEEecCCcccc
Confidence            999999999988754    4899999999999987643 345567889999999997543    2369999999999999


Q ss_pred             cHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccc--
Q 007255          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE--  253 (611)
Q Consensus       176 ~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~--  253 (611)
                      ++++++++||...++++.|+.++|.+|++.++.......+.++..++..+.||+++++..+|++|...+.++..+...  
T Consensus       354 d~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~l~~la~~t~g~s~~dL~~L~~~A~~~a~r~~~~~i~~~  433 (489)
T 3hu3_A          354 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLE  433 (489)
T ss_dssp             CGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTTTTCCTT
T ss_pred             CHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHccCCcHHHHHHHHHHHHHHHHHhcccccccc
Confidence            999999999999999999999999999999999888888888999999999999999999999999999887643211  


Q ss_pred             -------cccccchhHHHHHHHHhccCCcccccccccCCCcccccccchhH
Q 007255          254 -------CAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRD  297 (611)
Q Consensus       254 -------~~~~~~v~~ed~~~a~~~i~~~~~~~~~~~~~~~~~~~i~g~~~  297 (611)
                             ......++.+||..+...+.|+..+......|.++|+||+|...
T Consensus       434 ~~~~~~~~~~~~~vt~edf~~Al~~~~ps~~re~~~e~p~v~W~dig~~~~  484 (489)
T 3hu3_A          434 DETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGRSH  484 (489)
T ss_dssp             CSSCCHHHHHHCCBCHHHHHHHHTSHHHHHHHGGGC---------------
T ss_pred             ccccchhhcccCcCCHHHHHHHHHhCCchhhhcccccCCCCCHHHcCCCcc
Confidence                   11234688999999999999999999999999999999999654

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=100.00  E-value=2.8e-32  Score=314.05  Aligned_cols=448  Identities=21%  Similarity=0.266  Sum_probs=270.9

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~   85 (611)
                      ..+++++|.++.++.+.+.+..             ..+++++|+||||||||++++.+|+.+          +..++.++
T Consensus       167 ~~ld~viGr~~~i~~l~~~l~~-------------~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~  233 (854)
T 1qvr_A          167 GKLDPVIGRDEEIRRVIQILLR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQ  233 (854)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHHC-------------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEEC
T ss_pred             CCCcccCCcHHHHHHHHHHHhc-------------CCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEee
Confidence            4678999999999998887632             245689999999999999999999988          78899999


Q ss_pred             ccccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        86 ~~~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      ++.+.  ..+.|+....++.++..+...   ..++||||||+|.+.+.....+  .....+.+...++..        .+
T Consensus       234 ~~~l~~g~~~~g~~~~~l~~~~~~~~~~---~~~~iL~IDEi~~l~~~~~~~g--~~~~~~~L~~~l~~~--------~i  300 (854)
T 1qvr_A          234 MGSLLAGAKYRGEFEERLKAVIQEVVQS---QGEVILFIDELHTVVGAGKAEG--AVDAGNMLKPALARG--------EL  300 (854)
T ss_dssp             C-----------CHHHHHHHHHHHHHTT---CSSEEEEECCC---------------------HHHHHTT--------CC
T ss_pred             hHHhhccCccchHHHHHHHHHHHHHHhc---CCCeEEEEecHHHHhccCCccc--hHHHHHHHHHHHhCC--------Ce
Confidence            88876  456677888888888887642   3578999999999986543221  123445555666542        36


Q ss_pred             EEEEeecCcc----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCC----CCC-CcccHHHHHHhccCC-----c
Q 007255          164 VVVASTNRVD----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV----PLD-ANVDLEAIATSCNGY-----V  229 (611)
Q Consensus       164 ~ii~ttn~~~----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~----~~~-~~~~~~~la~~~~g~-----~  229 (611)
                      .+|++||.++    .+++++.+  ||. .+.+++|+.+++.+|++.++...    ... .+..+..++..+.||     .
T Consensus       301 ~~I~at~~~~~~~~~~d~aL~r--Rf~-~i~l~~p~~~e~~~iL~~~~~~~~~~~~~~i~~~al~~~~~ls~r~i~~~~l  377 (854)
T 1qvr_A          301 RLIGATTLDEYREIEKDPALER--RFQ-PVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRL  377 (854)
T ss_dssp             CEEEEECHHHHHHHTTCTTTCS--CCC-CEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCT
T ss_pred             EEEEecCchHHhhhccCHHHHh--CCc-eEEeCCCCHHHHHHHHHhhhhhhhhhcCCCCCHHHHHHHHHHHhhhcccccC
Confidence            6888888764    47899998  997 59999999999999998766532    111 122355555555443     2


Q ss_pred             cccHHHHHHHHHHHHhhhcccc----------------------ccc---------------------------------
Q 007255          230 GADLEALCREATMSAVKRSSDA----------------------NEC---------------------------------  254 (611)
Q Consensus       230 ~~dl~~l~~~a~~~a~~r~~~~----------------------~~~---------------------------------  254 (611)
                      ......++++|+..........                      .+.                                 
T Consensus       378 p~kai~lldea~a~~~~~~~~~p~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  457 (854)
T 1qvr_A          378 PDKAIDLIDEAAARLRMALESAPEEIDALERKKLQLEIEREALKKEKDPDSQERLKAIEAEIAKLTEEIAKLRAEWERER  457 (854)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHHHHHHHHHHHSSCSSHHHHSCTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhhccCCchhHHHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445554443322110000                      000                                 


Q ss_pred             -------------------------c---------------------------------cccchhHHHHHHHHhccCCcc
Q 007255          255 -------------------------A---------------------------------GVLSVTMEDWRHARSVVGPSI  276 (611)
Q Consensus       255 -------------------------~---------------------------------~~~~v~~ed~~~a~~~i~~~~  276 (611)
                                               .                                 ....++.+++...........
T Consensus       458 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~l~~~v~~~~~ip  537 (854)
T 1qvr_A          458 EILRKLREAQHRLDEVRREIELAERQYDLNRAAELRYGELPKLEAEVEALSEKLRGARFVRLEVTEEDIAEIVSRWTGIP  537 (854)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTTTCHHHHHHHHTTHHHHHHHHHHHHHHHSSSCSSCCSEECHHHHHHHHHTTSSCH
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHhcccHHHHHHHhhhhhHHHHHHHHHHHhhhcccccccCCcCHHHHHHHHHHHhCCC
Confidence                                     0                                 000111122211111110000


Q ss_pred             -cccc------cccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-
Q 007255          277 -TRGV------TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-  348 (611)
Q Consensus       277 -~~~~------~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-  348 (611)
                       .+..      ....+..-+++++|++.+.+.+...+.......    .-...|..++||+||||||||++|+++|..+ 
T Consensus       538 ~~~~~~~~~~~l~~l~~~l~~~viG~~~a~~~l~~~i~~~~~g~----~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~  613 (854)
T 1qvr_A          538 VSKLLEGEREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGL----KDPNRPIGSFLFLGPTGVGKTELAKTLAATLF  613 (854)
T ss_dssp             HHHTTCCHHHHHHSHHHHHHHHSCSCHHHHHHHHHHHHHHGGGC----SCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHH
T ss_pred             hHhhcHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHHHHHhccc----CCCCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence             0000      000011123567888888888877765311000    0011233579999999999999999999998 


Q ss_pred             --CCcEEeecchhhccc------------cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHH
Q 007255          349 --EASFFSLSGAELYSM------------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLL  414 (611)
Q Consensus       349 --~~~~~~~~~~~~~~~------------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~  414 (611)
                        +.+++.++++++...            |+|..+  ...+....+...++||||||++.+              ...++
T Consensus       614 ~~~~~~i~i~~~~~~~~~~~s~l~g~~~~~~G~~~--~g~l~~~~~~~~~~vl~lDEi~~l--------------~~~~~  677 (854)
T 1qvr_A          614 DTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEE--GGQLTEAVRRRPYSVILFDEIEKA--------------HPDVF  677 (854)
T ss_dssp             SSGGGEEEECTTTCCSSGGGGGC----------------CHHHHHHHCSSEEEEESSGGGS--------------CHHHH
T ss_pred             CCCCcEEEEechhccchhHHHHHcCCCCCCcCccc--cchHHHHHHhCCCeEEEEeccccc--------------CHHHH
Confidence              789999999877553            222222  123444455566789999999876              35688


Q ss_pred             HHHHHHhcCCCC---------CCCeEEEEecCCCc--------------------------ccchhccCCCCccceeecC
Q 007255          415 STLLTEMDGLEQ---------AKGILVLAATNRPH--------------------------AIDAALMRPGRFDLVLYVP  459 (611)
Q Consensus       415 ~~ll~~l~~~~~---------~~~~~vI~~tn~~~--------------------------~ld~al~r~gRf~~~i~~~  459 (611)
                      +.|++.|+...-         -.+++||+|||.+.                          .+.|+|+.  ||+.++.|+
T Consensus       678 ~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~tsn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~--Rl~~~i~~~  755 (854)
T 1qvr_A          678 NILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFR  755 (854)
T ss_dssp             HHHHHHHTTTEECCSSSCCEECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCC
T ss_pred             HHHHHHhccCceECCCCCEeccCCeEEEEecCcChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHH--hcCeEEeCC
Confidence            999999984321         13688999999731                          23455665  999999999


Q ss_pred             CCCHHHHHHHHHHHhcCC---------CC-CCcccHHHHHHhCC--CCCHHHHHHHHHHHHHHHHHh
Q 007255          460 PPDLEARHEILRVHTRNM---------KV-GDDVDLRSIAEETE--LFTGAELEGLCREAGIVALRE  514 (611)
Q Consensus       460 ~p~~~~r~~il~~~~~~~---------~~-~~~~~~~~la~~~~--g~s~~~i~~~~~~a~~~a~~~  514 (611)
                      +|+.+++..|++.++..+         .+ .++..++.|+....  .+..++++++++.+...+..+
T Consensus       756 pl~~edi~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~L~~~~~~~~gn~R~L~~~i~~~~~~~~~~  822 (854)
T 1qvr_A          756 PLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQ  822 (854)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHHHHCBTTTBTSTHHHHHHHHTHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHhCCceEEECHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHH
Confidence            999999999998766421         11 13344667777655  457788898888776666544

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=100.00  E-value=4.5e-32  Score=268.61  Aligned_cols=246  Identities=41%  Similarity=0.703  Sum_probs=212.6

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      ...|..+|++++|++.++..+.+.... +..+..+...++..++|++|+||||||||++++++|..++..++.+++.++.
T Consensus         8 ~~~~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~   86 (254)
T 1ixz_A            8 TEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFV   86 (254)
T ss_dssp             CCCCSCCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHH
T ss_pred             cCCCCCCHHHhCCcHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHH
Confidence            345788999999999999999987765 5667788888999899999999999999999999999999999999999998


Q ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc
Q 007255          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA  441 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~  441 (611)
                      ..+.+.....+..+|+.+....|+++|+||+|.+...+............+.+++++..|++......++++++||.|+.
T Consensus        87 ~~~~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~  166 (254)
T 1ixz_A           87 EMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDI  166 (254)
T ss_dssp             HSCTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGG
T ss_pred             HHHhhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchh
Confidence            88888888889999999887789999999999997765432112223446778999999998877778999999999999


Q ss_pred             cchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccc
Q 007255          442 IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAV  521 (611)
Q Consensus       442 ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i  521 (611)
                      +|++++|++||+..++++.|+.++|.+||+.+.++.++..++++..++..+.||+++||+++|++|...|..+.  ...|
T Consensus       167 ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~~~~~a~~~a~~~~--~~~I  244 (254)
T 1ixz_A          167 LDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG--RRKI  244 (254)
T ss_dssp             SCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT--CSSB
T ss_pred             CCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhc--CCCc
Confidence            99999999999999999999999999999999988888888999999999999999999999999999887653  3568


Q ss_pred             cHHHHHHHH
Q 007255          522 RNRHFQTVK  530 (611)
Q Consensus       522 ~~~~~~~~l  530 (611)
                      +.+|+..++
T Consensus       245 ~~~dl~~a~  253 (254)
T 1ixz_A          245 TMKDLEEAA  253 (254)
T ss_dssp             CHHHHHHHT
T ss_pred             CHHHHHHHh
Confidence            999888775

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=100.00  E-value=5.1e-31  Score=269.37  Aligned_cols=230  Identities=32%  Similarity=0.553  Sum_probs=200.2

Q ss_pred             ccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh-CCcEEEE
Q 007255            6 RIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-GAHLTVI   84 (611)
Q Consensus         6 ~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l-~~~~~~v   84 (611)
                      .+.+.+++.|   ++|+|++++++.|.+.+..|+.+++.+.. +..+++++||+||||||||++++++|+++ +.+++.+
T Consensus         2 i~~~~~~~~~---~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i   77 (322)
T 1xwi_A            2 IVIERPNVKW---SDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSI   77 (322)
T ss_dssp             CEEECCCCCG---GGSCSCHHHHHHHHHHHHHHHHCGGGSCT-TCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEE
T ss_pred             eeecCCCCCH---HHhcCHHHHHHHHHHHHHHHHhCHHHHhC-CCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEE
Confidence            4566778888   88999999999999999999999888763 35677999999999999999999999999 8899999


Q ss_pred             cccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC-chhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        85 ~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      +++++...+.|..+..++.+|..+...    +|+||||||+|.+++.+... .....++..+++..++....   ...++
T Consensus        78 ~~~~l~~~~~g~~~~~~~~lf~~a~~~----~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~---~~~~v  150 (322)
T 1xwi_A           78 SSSDLVSKWLGESEKLVKNLFQLAREN----KPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV---DNDGI  150 (322)
T ss_dssp             ECCSSCCSSCCSCHHHHHHHHHHHHHT----SSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSS---CCTTE
T ss_pred             EhHHHHhhhhhHHHHHHHHHHHHHHhc----CCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccc---cCCCE
Confidence            999999999999999999999887644    59999999999998866432 34455778889999987542   22469


Q ss_pred             EEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHH
Q 007255          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATM  242 (611)
Q Consensus       164 ~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~  242 (611)
                      ++|++||.++.+|++++|  ||+..++++.|+.++|.+|++.++...+.. .+.++..++..+.||+|+||..+|++|..
T Consensus       151 ~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~A~~  228 (322)
T 1xwi_A          151 LVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALM  228 (322)
T ss_dssp             EEEEEESCTTTSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTCTTCCHHHHHHHHHHHHT
T ss_pred             EEEEecCCcccCCHHHHh--hcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            999999999999999999  999999999999999999999999877654 55679999999999999999999999999


Q ss_pred             HHhhhc
Q 007255          243 SAVKRS  248 (611)
Q Consensus       243 ~a~~r~  248 (611)
                      .++++.
T Consensus       229 ~a~r~~  234 (322)
T 1xwi_A          229 QPVRKV  234 (322)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            888764

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.98  E-value=3e-31  Score=264.47  Aligned_cols=258  Identities=42%  Similarity=0.659  Sum_probs=205.4

Q ss_pred             ccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc
Q 007255           10 EHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (611)
Q Consensus        10 ~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~   89 (611)
                      .+++.|   ++|+|++++++.|.+.+..|+..+..+..+++..+.+++|+||||||||++++++|..++..++.++..++
T Consensus         4 ~~~~~~---~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l   80 (274)
T 2x8a_A            4 VPNVTW---ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPEL   80 (274)
T ss_dssp             -----------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTT
T ss_pred             CCCCCH---HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHH
Confidence            456677   88999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             ccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC-chhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEe
Q 007255           90 HKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (611)
Q Consensus        90 ~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t  168 (611)
                      ...+.++....+..+|..+...    .|+++++||+|.++..+... .....++.++++..|+......    .++++++
T Consensus        81 ~~~~~~~~~~~i~~vf~~a~~~----~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~----~~i~ia~  152 (274)
T 2x8a_A           81 LNMYVGESERAVRQVFQRAKNS----APCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQ----QVFIMAA  152 (274)
T ss_dssp             CSSTTHHHHHHHHHHHHHHHHT----CSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTT----CEEEEEE
T ss_pred             HhhhhhHHHHHHHHHHHHHHhc----CCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccC----CEEEEee
Confidence            8888888888899999887543    48999999999987654211 1122356678888888764332    5899999


Q ss_pred             ecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcC---CCCCCcccHHHHHHh--ccCCccccHHHHHHHHHHH
Q 007255          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK---VPLDANVDLEAIATS--CNGYVGADLEALCREATMS  243 (611)
Q Consensus       169 tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~---~~~~~~~~~~~la~~--~~g~~~~dl~~l~~~a~~~  243 (611)
                      ||.++.+|++++|+|||+..|+++.|+.++|.+|++.+++.   .....+.++..++..  |+||+|.||.++|++|...
T Consensus       153 tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~~~~~~g~sgadl~~l~~~a~~~  232 (274)
T 2x8a_A          153 TNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASIC  232 (274)
T ss_dssp             ESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHTCSGGGSCCHHHHHHHHHHHHHH
T ss_pred             cCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHHhhccCCcCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999998854   345567889999987  4599999999999999999


Q ss_pred             Hhhhccccc---ccccccchhHHHHHHHHhccCCcccc
Q 007255          244 AVKRSSDAN---ECAGVLSVTMEDWRHARSVVGPSITR  278 (611)
Q Consensus       244 a~~r~~~~~---~~~~~~~v~~ed~~~a~~~i~~~~~~  278 (611)
                      ++++.....   .......++.+||..+...+.|+..+
T Consensus       233 a~~~~~~~~~~~~~~~~~~i~~~df~~al~~~~ps~~~  270 (274)
T 2x8a_A          233 ALRQEMARQKSGNEKGELKVSHKHFEEAFKKVRSSISK  270 (274)
T ss_dssp             HHHHHC-----------CCBCHHHHHHHHTTCCCCC--
T ss_pred             HHHHHHhhccccccccCCeecHHHHHHHHHHhcCCCCh
Confidence            887653221   12234578999999999999887654

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=99.98  E-value=1.4e-33  Score=281.81  Aligned_cols=255  Identities=39%  Similarity=0.655  Sum_probs=215.2

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ..+..+|++++|++.+++.+.+.+.. +.+++.+..++..+++++||+||||||||++|+++|.+++.+++.++++++..
T Consensus         4 ~~~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~   82 (268)
T 2r62_A            4 EKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIE   82 (268)
T ss_dssp             CCCCCCSTTSSSCTTTHHHHHHHHHH-HHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTT
T ss_pred             cCCCCCHHHhCCcHHHHHHHHHHHHH-HHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHH
Confidence            45678899999999999999998775 78889999999999999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCC-CCcchhHHHHHHHHHHhcCCCC-CCCeEEEEecCCCc
Q 007255          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSS-TSITVGERLLSTLLTEMDGLEQ-AKGILVLAATNRPH  440 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~-~~~~~~~~~~~~ll~~l~~~~~-~~~~~vI~~tn~~~  440 (611)
                      .+.|.....++.+|..+....|+||||||+|.+..++...+. .......+.++.|+..+++... ..+++||+|||.++
T Consensus        83 ~~~~~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~ttn~~~  162 (268)
T 2r62_A           83 MFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPE  162 (268)
T ss_dssp             SCSSSCSSSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSCSCCEEEECBSCCT
T ss_pred             hhcchHHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCCCCEEEEEecCCch
Confidence            888888777888999999889999999999999876532111 1112223456778888887543 34589999999999


Q ss_pred             ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccccc
Q 007255          441 AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATA  520 (611)
Q Consensus       441 ~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~  520 (611)
                      .+|++++|+|||+..++++.|+.++|.++|+.++++.....+.++..++..+.||++++|.++|+.|...|..+.  ...
T Consensus       163 ~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~~g~dl~~l~~~a~~~a~~~~--~~~  240 (268)
T 2r62_A          163 ILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAGRNN--QKE  240 (268)
T ss_dssp             TSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSCCTTTTTSSSCSSCHHHHHHHHHHHHHTTSSSC--CCS
T ss_pred             hcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhc--cCC
Confidence            999999999999999999999999999999999998888888889999999999999999999999988875432  457


Q ss_pred             ccHHHHHHHHhhcCCCCCHH
Q 007255          521 VRNRHFQTVKDSLKPALTKE  540 (611)
Q Consensus       521 i~~~~~~~~l~~~~~~~~~~  540 (611)
                      |+.+++..++....|....+
T Consensus       241 i~~~~~~~a~~~~~~~~~~~  260 (268)
T 2r62_A          241 VRQQHLKEAVERGIAGLEKK  260 (268)
T ss_dssp             CCHHHHHTSCTTCCCCCC--
T ss_pred             cCHHHHHHHHHHHhhcchhh
Confidence            99999999998888765544

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=99.98  E-value=2.3e-31  Score=269.88  Aligned_cols=260  Identities=33%  Similarity=0.568  Sum_probs=219.0

Q ss_pred             ccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 007255            6 RIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (611)
Q Consensus         6 ~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~   85 (611)
                      .+...++..|   ++|+|++++++.|.+.+..|+.+++.+..+|..++.++||+||||||||++++++|++++.+++.++
T Consensus         5 ~~~~~~~~~~---~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~   81 (301)
T 3cf0_A            5 TVVEVPQVTW---EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK   81 (301)
T ss_dssp             CCEECCCCCG---GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEEC
T ss_pred             ccccCCCCCH---HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEE
Confidence            4456677777   7899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCC
Q 007255           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVP  161 (611)
Q Consensus        86 ~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~----~~~~~~~~~~~ll~~l~~~~~~~~~~~  161 (611)
                      ++++...+.|.....++.+|..+...    .|+||||||+|.+.+.+..    ......+++..++..++....    ..
T Consensus        82 ~~~l~~~~~g~~~~~~~~~f~~a~~~----~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~----~~  153 (301)
T 3cf0_A           82 GPELLTMWFGESEANVREIFDKARQA----APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST----KK  153 (301)
T ss_dssp             HHHHHHHHHTTCTTHHHHHHHHHHHT----CSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCT----TS
T ss_pred             hHHHHhhhcCchHHHHHHHHHHHHhc----CCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccC----CC
Confidence            99988888888888889999888654    4899999999998764321    112334677889999986532    23


Q ss_pred             cEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHH
Q 007255          162 HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       162 ~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                      +++||++||.++.+++++.+++||+..++++.|+.++|.+|++.++.......+.++..++..+.||+|++|.++|++|+
T Consensus       154 ~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~~~~la~~~~g~sg~dl~~l~~~a~  233 (301)
T 3cf0_A          154 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRAC  233 (301)
T ss_dssp             SEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHTCSSCCHHHHHHHHHHHH
T ss_pred             CEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccchHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            69999999999999999999999999999999999999999999998888777888999999999999999999999999


Q ss_pred             HHHhhhcccccc-----------------cccccchhHHHHHHHHhccCCcc
Q 007255          242 MSAVKRSSDANE-----------------CAGVLSVTMEDWRHARSVVGPSI  276 (611)
Q Consensus       242 ~~a~~r~~~~~~-----------------~~~~~~v~~ed~~~a~~~i~~~~  276 (611)
                      ..+..+......                 ......++.+||..+...+.|+.
T Consensus       234 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~al~~~~~s~  285 (301)
T 3cf0_A          234 KLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSV  285 (301)
T ss_dssp             HHHHHHHHHHHC--------------------CCCBCHHHHHHHHTTCCCSS
T ss_pred             HHHHHHHHHhhhhhhhhcccccccccccccccCCccCHHHHHHHHHHcCCCC
Confidence            988776432110                 01124578888888888877654

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=99.97  E-value=1.1e-30  Score=267.50  Aligned_cols=259  Identities=29%  Similarity=0.509  Sum_probs=215.4

Q ss_pred             ccccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 007255            6 RIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (611)
Q Consensus         6 ~~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~   85 (611)
                      .+...++..|   ++|+|++.+++.|.+.+..|..+++.+.. +..++.++||+||||||||++|+++|++++.+++.++
T Consensus         8 ~~~~~~~~~~---~di~G~~~~~~~l~~~i~~~~~~~~~~~~-~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~   83 (322)
T 3eie_A            8 ILSEKPNVKW---EDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVS   83 (322)
T ss_dssp             SEEECCCCCG---GGSCSCHHHHHHHHHHTHHHHHCGGGCCT-TCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEE
T ss_pred             eeecCCCCCH---HHhcChHHHHHHHHHHHHHHHhCHHHHhc-CCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEc
Confidence            4556667777   88999999999999999999988887765 5567899999999999999999999999999999999


Q ss_pred             ccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        86 ~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      ++++...+.+.....++.+|..+...    +|+||||||+|.+.+.+. .......+++..++..++.....   ..+++
T Consensus        84 ~~~l~~~~~g~~~~~~~~~f~~a~~~----~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~---~~~v~  156 (322)
T 3eie_A           84 SSDLVSKWMGESEKLVKQLFAMAREN----KPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGND---SQGVL  156 (322)
T ss_dssp             HHHHHTTTGGGHHHHHHHHHHHHHHT----SSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTS---CCCEE
T ss_pred             hHHHhhcccchHHHHHHHHHHHHHhc----CCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhcccccc---CCceE
Confidence            99999999999999999999988754    589999999999988653 23344567788899999875432   23699


Q ss_pred             EEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHHH
Q 007255          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMS  243 (611)
Q Consensus       165 ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~~  243 (611)
                      +|++||.++.+++++++  ||+..++++.|+.++|.+|++.++...... .+.++..++..+.||++++|..+|++|...
T Consensus       157 vi~atn~~~~ld~al~~--Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di~~l~~~a~~~  234 (322)
T 3eie_A          157 VLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQ  234 (322)
T ss_dssp             EEEEESCGGGSCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHHHHHHHHHTTH
T ss_pred             EEEecCChhhCCHHHHc--ccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999  999999999999999999999999877654 556799999999999999999999999988


Q ss_pred             Hhhhcccccc-----------------------------------cccccchhHHHHHHHHhccCCccc
Q 007255          244 AVKRSSDANE-----------------------------------CAGVLSVTMEDWRHARSVVGPSIT  277 (611)
Q Consensus       244 a~~r~~~~~~-----------------------------------~~~~~~v~~ed~~~a~~~i~~~~~  277 (611)
                      ++++......                                   ......++.+||..+...+.|+..
T Consensus       235 a~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~it~~df~~al~~~~ps~~  303 (322)
T 3eie_A          235 PIRKIQSATHFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTVN  303 (322)
T ss_dssp             HHHHHHHCEEEEECC----CCCCEEECCSSCTTEEEEEGGGSCSSCBCCCCCCHHHHHHHHHHSCCSSC
T ss_pred             HHHHHhhhhhhhhhccccccccccccccccccccccccccccccccccCCCCCHHHHHHHHHhcCCCCC
Confidence            8876543200                                   001245888999999888887654

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.97  E-value=1.4e-30  Score=261.35  Aligned_cols=243  Identities=41%  Similarity=0.708  Sum_probs=210.4

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~  364 (611)
                      |..+|++++|++.+++.+.+.... +..+..+..+++..+++++|+||||||||++++++|..++..++.+++.++...+
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~~  113 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMF  113 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHST
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHHH
Confidence            788999999999999999987764 5567788888888888999999999999999999999999999999999988888


Q ss_pred             ccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccch
Q 007255          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDA  444 (611)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~  444 (611)
                      .+.....+..+|+.+....|+++|+||+|.+...+............+.+++++..|++......++++++||.|+.+|+
T Consensus       114 ~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t~~p~~ld~  193 (278)
T 1iy2_A          114 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDP  193 (278)
T ss_dssp             TTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEEESCTTSSCH
T ss_pred             hhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEecCCchhCCH
Confidence            88888889999999988889999999999987665321111223345678899999998877777999999999999999


Q ss_pred             hccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHH
Q 007255          445 ALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNR  524 (611)
Q Consensus       445 al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~  524 (611)
                      +++|++||+..++++.|+.++|.+||+.++++..+..++++..++..+.||+++||+++|++|...+..+.  ...|+.+
T Consensus       194 ~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~l~~~a~~~a~~~~--~~~I~~~  271 (278)
T 1iy2_A          194 ALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG--RRKITMK  271 (278)
T ss_dssp             HHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT--CCSBCHH
T ss_pred             hHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhC--CCCcCHH
Confidence            99999999999999999999999999999988888888999999999999999999999999998887653  3568999


Q ss_pred             HHHHHH
Q 007255          525 HFQTVK  530 (611)
Q Consensus       525 ~~~~~l  530 (611)
                      |+..++
T Consensus       272 dl~~a~  277 (278)
T 1iy2_A          272 DLEEAA  277 (278)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            988775

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=99.97  E-value=6.3e-30  Score=264.92  Aligned_cols=256  Identities=29%  Similarity=0.521  Sum_probs=205.3

Q ss_pred             cccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccc
Q 007255            9 SEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (611)
Q Consensus         9 ~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~   88 (611)
                      ..++..|   ++|+|++.+++.|.+.+..|+.++..+.. +..++.++||+||||||||++|+++|++++.+++.+++++
T Consensus        44 ~~~~~~~---~di~G~~~~~~~l~~~v~~~~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~  119 (355)
T 2qp9_X           44 EKPNVKW---EDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSD  119 (355)
T ss_dssp             ---CCCG---GGSCCGGGHHHHHHHHTHHHHHCGGGGCS-SCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHH
T ss_pred             cCCCCCH---HHhCCHHHHHHHHHHHHHHHHhCHHHHhc-CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHH
Confidence            3444445   89999999999999999999888888775 5677899999999999999999999999999999999999


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEE
Q 007255           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (611)
Q Consensus        89 ~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~  167 (611)
                      +...+.+.....++.+|..+...    .|+||||||+|.+.+.+.. .......++.+++..++.....   ..+++||+
T Consensus       120 l~~~~~g~~~~~~~~~f~~a~~~----~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~---~~~v~vI~  192 (355)
T 2qp9_X          120 LVSKWMGESEKLVKQLFAMAREN----KPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGND---SQGVLVLG  192 (355)
T ss_dssp             HHSCC---CHHHHHHHHHHHHHT----SSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC------CCEEEEE
T ss_pred             HhhhhcchHHHHHHHHHHHHHHc----CCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhccccc---CCCeEEEe
Confidence            98888899999999999887643    5899999999999876532 2334556788899999865432   23699999


Q ss_pred             eecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHHHHhh
Q 007255          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVK  246 (611)
Q Consensus       168 ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~  246 (611)
                      +||.++.+++++++  ||+..++++.|+.++|.+|++.++...+.. .+.++..++..+.||+|++|.++|++|...+++
T Consensus       193 atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~l~~~A~~~a~~  270 (355)
T 2qp9_X          193 ATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIR  270 (355)
T ss_dssp             EESCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHH
T ss_pred             ecCCcccCCHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            99999999999999  999999999999999999999999877643 456799999999999999999999999999888


Q ss_pred             hccccc-----------------------------------ccccccchhHHHHHHHHhccCCccc
Q 007255          247 RSSDAN-----------------------------------ECAGVLSVTMEDWRHARSVVGPSIT  277 (611)
Q Consensus       247 r~~~~~-----------------------------------~~~~~~~v~~ed~~~a~~~i~~~~~  277 (611)
                      +.....                                   .......++.+||..+...+.|+..
T Consensus       271 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~df~~Al~~~~ps~~  336 (355)
T 2qp9_X          271 KIQSATHFKDVSTEDDETRKLTPSSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTVN  336 (355)
T ss_dssp             HHHHCSEEEECCC-----CCEEEECTTSSSEEECCGGGSCGGGBCCCCBCHHHHHHHHHHSCCSSC
T ss_pred             HHHHhhhhhhhccccccccccCcCCccccchhhcccccccccccccCCccHHHHHHHHHHcCCCCC
Confidence            643210                                   0001235788888888888877643

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.97  E-value=5.2e-29  Score=251.00  Aligned_cols=248  Identities=39%  Similarity=0.647  Sum_probs=208.2

Q ss_pred             cccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 007255            7 IMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (611)
Q Consensus         7 ~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~   86 (611)
                      +...++..|   ++|+|++++++.|.+.+..++..++.+...|..++.++||+||||||||++++++|+.++.+++.+++
T Consensus         8 ~~~~~~~~~---~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~   84 (285)
T 3h4m_A            8 VDERPNVRY---EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVG   84 (285)
T ss_dssp             EESSCCCCG---GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEG
T ss_pred             ccCCCCCCH---HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEeh
Confidence            334445555   89999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC----chhhHHHHHHHHHHHhcCCCCCCCCCc
Q 007255           87 HSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKPSKTSVPH  162 (611)
Q Consensus        87 ~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~----~~~~~~~~~~ll~~l~~~~~~~~~~~~  162 (611)
                      +++...+.+.....+..+|..+...    .|+||||||+|.+.+.+...    .......+..++..++....    ..+
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~----~~~  156 (285)
T 3h4m_A           85 SELVKKFIGEGASLVKDIFKLAKEK----APSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA----RGD  156 (285)
T ss_dssp             GGGCCCSTTHHHHHHHHHHHHHHHT----CSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS----SSS
T ss_pred             HHHHHhccchHHHHHHHHHHHHHHc----CCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC----CCC
Confidence            9999989998888888888887654    48999999999998765432    11222334444555543322    236


Q ss_pred             EEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHH
Q 007255          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATM  242 (611)
Q Consensus       163 v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~  242 (611)
                      +++|+|||.++.+++++.+++||+..+.++.|+.++|.+|++.++.......+.++..++..+.|++++++..+++.|..
T Consensus       157 ~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~  236 (285)
T 3h4m_A          157 VKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGM  236 (285)
T ss_dssp             EEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHHCTTCCHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999988888888889999999999999999999999998


Q ss_pred             HHhhhcccccccccccchhHHHHHHHHhccC
Q 007255          243 SAVKRSSDANECAGVLSVTMEDWRHARSVVG  273 (611)
Q Consensus       243 ~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~  273 (611)
                      .+..+..+        .++.+|+..+...+.
T Consensus       237 ~a~~~~~~--------~I~~~d~~~al~~~~  259 (285)
T 3h4m_A          237 NAIRELRD--------YVTMDDFRKAVEKIM  259 (285)
T ss_dssp             HHHHTTCS--------SBCHHHHHHHHHHHH
T ss_pred             HHHHhccC--------cCCHHHHHHHHHHHH
Confidence            88775432        477888887766543

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=99.97  E-value=8.5e-29  Score=262.75  Aligned_cols=244  Identities=39%  Similarity=0.594  Sum_probs=207.6

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccc
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~   94 (611)
                      -..|++|+|++++++.|.+.+.. +..+..+..+|...|+++||+||||||||++++++|.+++.+++.++++++...+.
T Consensus        12 ~~~f~di~G~~~~~~~l~e~v~~-l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~~   90 (476)
T 2ce7_A           12 RVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFV   90 (476)
T ss_dssp             CCCGGGCCSCHHHHHHHHHHHHH-HHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCCT
T ss_pred             CCCHHHhCCcHHHHHHHHHHHHH-hhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHHh
Confidence            34569999999999999998865 66788889999999999999999999999999999999999999999999998888


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeec
Q 007255           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (611)
Q Consensus        95 ~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~----~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn  170 (611)
                      |.....++.+|..+...    .|+||||||+|.+.+.+..    ........+.+|+..++....    ..+++||++||
T Consensus        91 g~~~~~~r~lf~~A~~~----~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~----~~~viVIaaTn  162 (476)
T 2ce7_A           91 GVGAARVRDLFAQAKAH----APCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDS----KEGIIVMAATN  162 (476)
T ss_dssp             THHHHHHHHHHHHHHHT----CSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCG----GGTEEEEEEES
T ss_pred             cccHHHHHHHHHHHHhc----CCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCC----CCCEEEEEecC
Confidence            88888899999988754    4999999999999876532    223344678888888886532    23689999999


Q ss_pred             CcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccc
Q 007255          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD  250 (611)
Q Consensus       171 ~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~  250 (611)
                      .++.+|+++.+++||+..+.++.|+.++|.+|++.+++..++..+.++..++..+.|++|++|.++|++|...+.++.. 
T Consensus       163 ~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~l~~la~~t~G~sgadL~~lv~~Aal~A~~~~~-  241 (476)
T 2ce7_A          163 RPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGR-  241 (476)
T ss_dssp             CGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTC-
T ss_pred             ChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhhHHHHHHhcCCCcHHHHHHHHHHHHHHHHHcCC-
Confidence            9999999999999999999999999999999999999988887788899999999999999999999999988765432 


Q ss_pred             ccccccccchhHHHHHHHHhccCCc
Q 007255          251 ANECAGVLSVTMEDWRHARSVVGPS  275 (611)
Q Consensus       251 ~~~~~~~~~v~~ed~~~a~~~i~~~  275 (611)
                             ..++.+|+..+...+.+.
T Consensus       242 -------~~I~~~dl~~al~~v~~~  259 (476)
T 2ce7_A          242 -------DKITMKDFEEAIDRVIAG  259 (476)
T ss_dssp             -------SSBCHHHHHHHHHHHC--
T ss_pred             -------CeecHHHHHHHHHHHhcC
Confidence                   257888998888766543

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=99.96  E-value=6.3e-29  Score=264.89  Aligned_cols=229  Identities=32%  Similarity=0.563  Sum_probs=186.2

Q ss_pred             cccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh-CCcEEEEc
Q 007255            7 IMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-GAHLTVIS   85 (611)
Q Consensus         7 ~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l-~~~~~~v~   85 (611)
                      +...++..|   ++|+|++++++.|.+.+..|+.++..+.. +..+++++||+||||||||++|+++|+++ +.+++.++
T Consensus       125 ~~~~~~~~~---~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~  200 (444)
T 2zan_A          125 VIERPNVKW---SDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSIS  200 (444)
T ss_dssp             BCCCCCCCG---GGSCSCHHHHHHHHHHHTHHHHCTTTTSG-GGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEEC
T ss_pred             eccCCCCCH---HHhcCHHHHHHHHHHHHHHHhhCHHHhhc-cCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEe
Confidence            444555666   88999999999999999988888877653 34577999999999999999999999999 88999999


Q ss_pred             ccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        86 ~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      ++++...+.|.....++.+|..+...    .|+||||||+|.+++.+.. ......+++.+++..++....   ...+++
T Consensus       201 ~~~l~~~~~g~~~~~~~~~f~~a~~~----~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~---~~~~v~  273 (444)
T 2zan_A          201 SSDLVSKWLGESEKLVKNLFQLAREN----KPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV---DNDGIL  273 (444)
T ss_dssp             CC---------CCCTHHHHHHHHHHS----CSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSC---CCSSCE
T ss_pred             HHHHHhhhcchHHHHHHHHHHHHHHc----CCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCccc---CCCCEE
Confidence            99998888888888888899877643    5899999999999876543 334456778888888876432   234689


Q ss_pred             EEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHHH
Q 007255          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMS  243 (611)
Q Consensus       165 ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~~  243 (611)
                      ||++||.++.++++++|  ||+..++++.|+.++|..|++.++...+.. .+.++..++..+.||+|++|..+|++|...
T Consensus       274 vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~a~~~  351 (444)
T 2zan_A          274 VLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDALMQ  351 (444)
T ss_dssp             EEEEESCGGGSCHHHHT--TCCEEEECCCCCHHHHHHHHHHHHTTSCEECCHHHHHHHHHHTTTCCHHHHHHHHHHHHTH
T ss_pred             EEecCCCccccCHHHHh--hcceEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999  999999999999999999999999876643 456799999999999999999999999998


Q ss_pred             Hhhhc
Q 007255          244 AVKRS  248 (611)
Q Consensus       244 a~~r~  248 (611)
                      ++++.
T Consensus       352 a~r~~  356 (444)
T 2zan_A          352 PVRKV  356 (444)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88764

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.96  E-value=4.5e-28  Score=240.24  Aligned_cols=242  Identities=36%  Similarity=0.555  Sum_probs=200.4

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccc
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH   93 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~   93 (611)
                      ....+++|+|++.+++.|.+.+.. +..+..+...|...+.+++|+||||||||++++++++.++.+++.++++++...+
T Consensus         7 ~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~~~   85 (257)
T 1lv7_A            7 IKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMF   85 (257)
T ss_dssp             SCCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSC
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHH-HhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHHHh
Confidence            345679999999999999998765 6677777788888899999999999999999999999999999999999998888


Q ss_pred             ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee
Q 007255           94 VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (611)
Q Consensus        94 ~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~----~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt  169 (611)
                      .+.....++.+|..+...    .|+++||||+|.+.+....    ........+..++..++....    ..++++|++|
T Consensus        86 ~~~~~~~~~~~~~~a~~~----~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~----~~~~~vI~~t  157 (257)
T 1lv7_A           86 VGVGASRVRDMFEQAKKA----APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG----NEGIIVIAAT  157 (257)
T ss_dssp             CCCCHHHHHHHHHHHHTT----CSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS----SSCEEEEEEE
T ss_pred             hhhhHHHHHHHHHHHHHc----CCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCccc----CCCEEEEEee
Confidence            888888888999887643    4899999999999876532    122234567788888886532    2368999999


Q ss_pred             cCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcc
Q 007255          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSS  249 (611)
Q Consensus       170 n~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~  249 (611)
                      |.++.+++++.+++||+..+.++.|+.++|.+|++.++...++..+.++..++..+.||++++|.+++++|...+..+..
T Consensus       158 n~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~~~~~la~~~~G~~~~dl~~l~~~a~~~a~~~~~  237 (257)
T 1lv7_A          158 NRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGNK  237 (257)
T ss_dssp             SCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             CCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCccccHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999888887788899999999999999999999999988876432


Q ss_pred             cccccccccchhHHHHHHHHhcc
Q 007255          250 DANECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       250 ~~~~~~~~~~v~~ed~~~a~~~i  272 (611)
                              ..++.+|+..+...+
T Consensus       238 --------~~i~~~~~~~a~~~~  252 (257)
T 1lv7_A          238 --------RVVSMVEFEKAKDKI  252 (257)
T ss_dssp             --------SSBCHHHHHHHHHHH
T ss_pred             --------CcccHHHHHHHHHHH
Confidence                    257888888776654

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=99.95  E-value=2.3e-27  Score=235.84  Aligned_cols=238  Identities=32%  Similarity=0.501  Sum_probs=177.0

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~   96 (611)
                      .|++|+|++++++.|.+.+.. +..+..+...|...++++||+||||||||++++++|++++.+++.++++++...+.+.
T Consensus         4 ~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   82 (262)
T 2qz4_A            4 SFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGL   82 (262)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHH-HHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSSTTH
T ss_pred             CHHHhCCHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhccCh
Confidence            348999999999999998765 6777788888999999999999999999999999999999999999999988888888


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC-----chhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-----REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~-----~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~  171 (611)
                      ....+..+|..+...    .|+||||||+|.+...+...     .......+..++..++....    ..++++|++||.
T Consensus        83 ~~~~~~~~~~~a~~~----~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~----~~~~~vi~~tn~  154 (262)
T 2qz4_A           83 GAARVRSLFKEARAR----APCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGT----TDHVIVLASTNR  154 (262)
T ss_dssp             HHHHHHHHHHHHHHT----CSEEEEEECC-------------------CHHHHHHHHHHHTCCT----TCCEEEEEEESC
T ss_pred             hHHHHHHHHHHHHhc----CCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCC----CCCEEEEecCCC
Confidence            888888888887643    48999999999997654321     11222445666676765432    236899999999


Q ss_pred             cccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCccc--HHHHHHhccCCccccHHHHHHHHHHHHhhhcc
Q 007255          172 VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD--LEAIATSCNGYVGADLEALCREATMSAVKRSS  249 (611)
Q Consensus       172 ~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~--~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~  249 (611)
                      ++.+++++.+++||+..++++.|+.++|.+|++.++.......+.+  ...++..+.|++++++.++++.|...+..+..
T Consensus       155 ~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~~a~~~a~~~~~  234 (262)
T 2qz4_A          155 ADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAREGH  234 (262)
T ss_dssp             GGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHHHHHTC------
T ss_pred             hhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcCC
Confidence            9999999999999999999999999999999999988776654433  47899999999999999999998876654321


Q ss_pred             cccccccccchhHHHHHHHHhc
Q 007255          250 DANECAGVLSVTMEDWRHARSV  271 (611)
Q Consensus       250 ~~~~~~~~~~v~~ed~~~a~~~  271 (611)
                              ..++.+|+..+...
T Consensus       235 --------~~i~~~d~~~a~~~  248 (262)
T 2qz4_A          235 --------TSVHTLNFEYAVER  248 (262)
T ss_dssp             ----------CCBCCHHHHHHH
T ss_pred             --------CCCCHHHHHHHHHH
Confidence                    23455555555443

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.95  E-value=4.1e-27  Score=251.25  Aligned_cols=245  Identities=36%  Similarity=0.554  Sum_probs=205.7

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccc
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~   94 (611)
                      ...|++++|++++++.+.+++.. +..+..+..++...+++++|+||||||||++++++|.+++.+++.++++++...+.
T Consensus        27 ~~~f~dv~G~~~~k~~l~~lv~~-l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~~  105 (499)
T 2dhr_A           27 KVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV  105 (499)
T ss_dssp             CCCTTSSCSCHHHHHHHHHHHHH-HHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSCT
T ss_pred             CCCHHHcCCcHHHHHHHHHHHHH-hhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhhh
Confidence            34569999999999999998765 66777888889999999999999999999999999999999999999999888888


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeec
Q 007255           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (611)
Q Consensus        95 ~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~----~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn  170 (611)
                      +.....++.+|+.+..    ..|+++||||+|.+......    ........+++++..++.....    ..++++++||
T Consensus       106 g~~~~~v~~lfq~a~~----~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~----~~viviAatn  177 (499)
T 2dhr_A          106 GVGAARVRDLFETAKR----HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD----TAIVVMAATN  177 (499)
T ss_dssp             THHHHHHHHHTTTSSS----SSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSS----CCCEEEECCS
T ss_pred             hhHHHHHHHHHHHHHh----cCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccC----ccEEEEEecC
Confidence            8777778888876543    24899999999998875432    2233345677888888865432    2579999999


Q ss_pred             CcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccc
Q 007255          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD  250 (611)
Q Consensus       171 ~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~  250 (611)
                      .++.+|+++.|++||+..+.++.|+.++|.+|++.+++...+..+.++..++..+.|++|++|.+++++|...+.++.. 
T Consensus       178 ~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv~l~~lA~~t~G~~gadL~~lv~~Aa~~A~~~~~-  256 (499)
T 2dhr_A          178 RPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGR-  256 (499)
T ss_dssp             CGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSSTTHHHHTTSCSCCHHHHHHHHHHHHHHHTTTCC-
T ss_pred             ChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhCC-
Confidence            9999999999999999999999999999999999999888888888899999999999999999999999887765422 


Q ss_pred             ccccccccchhHHHHHHHHhccCCcc
Q 007255          251 ANECAGVLSVTMEDWRHARSVVGPSI  276 (611)
Q Consensus       251 ~~~~~~~~~v~~ed~~~a~~~i~~~~  276 (611)
                             ..++.+|+..+...+.+..
T Consensus       257 -------~~It~~dl~~al~~v~~~~  275 (499)
T 2dhr_A          257 -------RKITMKDLEEAADRVMMLP  275 (499)
T ss_dssp             -------SSCCSHHHHHHHHHHTTCS
T ss_pred             -------CccCHHHHHHHHHHHhccc
Confidence                   2478888988887765543

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=99.95  E-value=1.2e-26  Score=240.80  Aligned_cols=251  Identities=33%  Similarity=0.538  Sum_probs=200.6

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~   96 (611)
                      .+++|+|++.+++.|.+.+..|+..+..+...+ .++.++||+||||||||++++++|++++.+++.++++++...+.+.
T Consensus        82 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g~  160 (357)
T 3d8b_A           82 NWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGE  160 (357)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-SCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCSSTTH
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhhChHhHhhcc-CCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhccccch
Confidence            448899999999999999998888877665544 5678999999999999999999999999999999999999988888


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccc
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l  175 (611)
                      ....++.+|..+...    +|+||||||+|.+.+.+.. ......+++..++..++.....  ...++++|++||.++.+
T Consensus       161 ~~~~~~~~~~~a~~~----~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~--~~~~v~vI~atn~~~~l  234 (357)
T 3d8b_A          161 GEKMVRALFAVARCQ----QPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTS--SEDRILVVGATNRPQEI  234 (357)
T ss_dssp             HHHHHHHHHHHHHHT----CSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC------CCCCEEEEEEESCGGGB
T ss_pred             HHHHHHHHHHHHHhc----CCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhccccc--CCCCEEEEEecCChhhC
Confidence            888888888877643    5899999999999876532 2334556778888888864322  22369999999999999


Q ss_pred             cHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccccc--
Q 007255          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN--  252 (611)
Q Consensus       176 ~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~--  252 (611)
                      ++++++  ||...++++.|+.++|.+|++.++...... .+..+..++..+.||+++++..+|+.|...+++......  
T Consensus       235 ~~~l~~--Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~t~G~s~~dl~~l~~~a~~~~ir~l~~~~~~  312 (357)
T 3d8b_A          235 DEAARR--RLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIRSLQTADIA  312 (357)
T ss_dssp             CHHHHT--TCCEEEECCCCCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHHHTHHHHHCCC----
T ss_pred             CHHHHh--hCceEEEeCCcCHHHHHHHHHHHHhhcCCCccHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence            999999  999899999999999999999988765543 345689999999999999999999999888777543211  


Q ss_pred             --ccccccchhHHHHHHHHhccCCcc
Q 007255          253 --ECAGVLSVTMEDWRHARSVVGPSI  276 (611)
Q Consensus       253 --~~~~~~~v~~ed~~~a~~~i~~~~  276 (611)
                        .......++.+||..+...+.|+.
T Consensus       313 ~~~~~~~~~i~~~d~~~al~~~~ps~  338 (357)
T 3d8b_A          313 TITPDQVRPIAYIDFENAFRTVRPSV  338 (357)
T ss_dssp             ------CCCBCHHHHHHHHHHHGGGC
T ss_pred             cccccccCCcCHHHHHHHHHhcCCCC
Confidence              112234678889988888776654

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.95  E-value=2.5e-26  Score=232.75  Aligned_cols=258  Identities=31%  Similarity=0.502  Sum_probs=203.2

Q ss_pred             ccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccc
Q 007255            8 MSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (611)
Q Consensus         8 ~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~   87 (611)
                      ...++..|   ++++|++.+++.|.+.+..|..+++.+...+ .++.++||+||||||||++++++|++++.+++.++++
T Consensus        13 ~~~~~~~~---~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~   88 (297)
T 3b9p_A           13 EGGAKVEW---TDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAA   88 (297)
T ss_dssp             CCSSCCCG---GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGG-CCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEEST
T ss_pred             cCCCCCCH---HHhCChHHHHHHHHHHHHhhhhCHHHHhcCC-CCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHH
Confidence            33445555   8899999999999999998888777766544 4578999999999999999999999999999999999


Q ss_pred             ccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC-chhhHHHHHHHHHHHhcCCCCCCCCCcEEEE
Q 007255           88 SVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQDVRIASQLFTLMDSNKPSKTSVPHVVVV  166 (611)
Q Consensus        88 ~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii  166 (611)
                      .+...+.+.....++.+|..+...    .|+||||||+|.+....... .......+..++..++...... ...++++|
T Consensus        89 ~l~~~~~~~~~~~~~~~~~~~~~~----~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-~~~~v~vi  163 (297)
T 3b9p_A           89 SLTSKYVGDGEKLVRALFAVARHM----QPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNP-DGDRIVVL  163 (297)
T ss_dssp             TTSSSSCSCHHHHHHHHHHHHHHT----CSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC-------CEEEE
T ss_pred             HHhhcccchHHHHHHHHHHHHHHc----CCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccC-CCCcEEEE
Confidence            998888888888888888877643    58999999999998765422 2234566778888888754321 12358999


Q ss_pred             EeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHHHHh
Q 007255          167 ASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAV  245 (611)
Q Consensus       167 ~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~  245 (611)
                      ++||.++.+++++.+  ||...++++.|+.++|..|++.++...... .+..+..++..+.|++++++..+++.|...++
T Consensus       164 ~~tn~~~~l~~~l~~--R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~~~g~~~~~l~~l~~~a~~~a~  241 (297)
T 3b9p_A          164 AATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDAALEPI  241 (297)
T ss_dssp             EEESCGGGBCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHHTTTCCHHHHHHHHHHHTTHHH
T ss_pred             eecCChhhCCHHHHh--hCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999  999999999999999999999988765432 34468899999999999999999999988887


Q ss_pred             hhccccc----ccccccchhHHHHHHHHhccCCcc
Q 007255          246 KRSSDAN----ECAGVLSVTMEDWRHARSVVGPSI  276 (611)
Q Consensus       246 ~r~~~~~----~~~~~~~v~~ed~~~a~~~i~~~~  276 (611)
                      ++.....    .......++.+||..+...+.|+.
T Consensus       242 r~~~~~~~~~~~~~~~~~i~~~d~~~a~~~~~~s~  276 (297)
T 3b9p_A          242 RELNVEQVKCLDISAMRAITEQDFHSSLKRIRRSV  276 (297)
T ss_dssp             HTCC--------CCCCCCCCHHHHHHHTTSCCCSS
T ss_pred             HHHhhhhcccccccccCCcCHHHHHHHHHHcCCCC
Confidence            7643211    111234688999999888777654

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=99.95  E-value=3.9e-26  Score=225.85  Aligned_cols=238  Identities=37%  Similarity=0.593  Sum_probs=193.8

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccc
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~   94 (611)
                      ...+++++|++++++.+.+.... +..+..+...+...+.+++|+||||||||+++++++..++..++.+++.++...+.
T Consensus        12 ~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~~~~   90 (254)
T 1ixz_A           12 KVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV   90 (254)
T ss_dssp             SCCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCT
T ss_pred             CCCHHHhCCcHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHHHHh
Confidence            34558999999999999987654 56677788889999999999999999999999999999999999999888776666


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeec
Q 007255           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (611)
Q Consensus        95 ~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~----~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn  170 (611)
                      +.....+..+|+.+...    .|+++++||+|.+......    ........+..++..++.....    ..+++++++|
T Consensus        91 ~~~~~~i~~~~~~~~~~----~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~----~~~i~~a~t~  162 (254)
T 1ixz_A           91 GVGAARVRDLFETAKRH----APCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD----TAIVVMAATN  162 (254)
T ss_dssp             THHHHHHHHHHHHHTTS----SSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTT----CCEEEEEEES
T ss_pred             hHHHHHHHHHHHHHHhc----CCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCC----CCEEEEEccC
Confidence            76667777888776432    4899999999988765432    1223345667788888765432    2488999999


Q ss_pred             CcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccc
Q 007255          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD  250 (611)
Q Consensus       171 ~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~  250 (611)
                      .++.+|+++.+++||+..++++.|+.++|.+|++.+.....+..+.++..++..+.|++++||.+++++|...+..+.. 
T Consensus       163 ~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~~~~~a~~~a~~~~~-  241 (254)
T 1ixz_A          163 RPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGR-  241 (254)
T ss_dssp             CGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTC-
T ss_pred             CchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhcC-
Confidence            9999999999999999999999999999999999998888777788899999999999999999999999887765421 


Q ss_pred             ccccccccchhHHHHHHHH
Q 007255          251 ANECAGVLSVTMEDWRHAR  269 (611)
Q Consensus       251 ~~~~~~~~~v~~ed~~~a~  269 (611)
                             ..++.+|+..+.
T Consensus       242 -------~~I~~~dl~~a~  253 (254)
T 1ixz_A          242 -------RKITMKDLEEAA  253 (254)
T ss_dssp             -------SSBCHHHHHHHT
T ss_pred             -------CCcCHHHHHHHh
Confidence                   247777776653

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=99.95  E-value=2.3e-28  Score=261.91  Aligned_cols=362  Identities=20%  Similarity=0.309  Sum_probs=234.4

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC--CcEEEEcccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG--AHLTVISPHSVHKAHV   94 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~--~~~~~v~~~~~~~~~~   94 (611)
                      .+++++|++++++.+..++...        ..|..+++++||+||||||||++|+++|++++  .+++.++++++...+.
T Consensus        35 ~~~~iiG~~~~~~~l~~~~~~~--------~~~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~~~~~  106 (456)
T 2c9o_A           35 AASGLVGQENAREACGVIVELI--------KSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEI  106 (456)
T ss_dssp             EETTEESCHHHHHHHHHHHHHH--------HTTCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGCCSSS
T ss_pred             chhhccCHHHHHHHHHHHHHHH--------HhCCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHHHHhh
Confidence            3589999999999998877432        23556778999999999999999999999999  8999999999999999


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhh--------------------HHHHHHHHHHHhcCC
Q 007255           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQD--------------------VRIASQLFTLMDSNK  154 (611)
Q Consensus        95 ~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~--------------------~~~~~~ll~~l~~~~  154 (611)
                      ++++. +...|..+.. .....|+||||||+|.+++.+.......                    .++...++..++...
T Consensus       107 ~~~~~-~~~~f~~a~~-~~~~~~~il~iDEid~l~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ll~~l~~~~  184 (456)
T 2c9o_A          107 KKTEV-LMENFRRAIG-LRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKER  184 (456)
T ss_dssp             CHHHH-HHHHHHHTEE-EEEEEEEEEEEEEEEEEEEC--------------CEEEEEEETTEEEEEEECHHHHHHHHHTT
T ss_pred             hhhHH-HHHHHHHHHh-hhhcCCcEEEEechhhcccccCCCCCCCcchHHHHHHHHHhccccchhHhhhHHHHHHHhhcc
Confidence            98887 8888888732 1234589999999999998764321100                    011223555555322


Q ss_pred             CCCCCCCcEEEEEeecCcccccHHhhccCCcce--EEEccCCC--HHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCcc
Q 007255          155 PSKTSVPHVVVVASTNRVDAIDPALRRSGRFDA--EVEVTVPT--AEERFEILKLYTKKVPLDANVDLEAIATSCNGYVG  230 (611)
Q Consensus       155 ~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~--~i~~~~p~--~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~  230 (611)
                      ..  ....++|++|||.++.+|+++.|++||+.  .+.++.|+  .++|.+|++.+..       .+++.++..++|  |
T Consensus       185 ~~--~~~~v~i~attn~~~~ld~a~~r~~rfd~~~~~~v~~p~~~~~~R~~il~~~~~-------~dl~~~a~~t~g--g  253 (456)
T 2c9o_A          185 VE--AGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVHKKKEIIQDVTL-------HDLDVANARPQG--G  253 (456)
T ss_dssp             CC--TTEEEEEETTTCCEEEEEEETTSCCTTSCSSSSEECCCCSCSEEEEEEEEEEEH-------HHHHHTC--------
T ss_pred             CC--CCCEEEEEcCCCCcccCChhhcCCcccCcceeEecCCCchhHHHHHHHHHHHHH-------HHHHHHHHhCCC--h
Confidence            11  12245666899999999999999999987  55667774  4667777654432       267888888888  8


Q ss_pred             ccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhccCCcccccccccCCCcccccccchhHHHHHHHHHhhccC
Q 007255          231 ADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPI  310 (611)
Q Consensus       231 ~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~  310 (611)
                      .|+.++|.....-.   ..         .+..                            ++  .+.+.+.+.++...  
T Consensus       254 adl~~l~~~i~~p~---~~---------~I~~----------------------------~l--r~~I~~~l~~~~~~--  289 (456)
T 2c9o_A          254 QDILSMMGQLMKPK---KT---------EITD----------------------------KL--RGEINKVVNKYIDQ--  289 (456)
T ss_dssp             -----------------------------------------------------------------CHHHHHHHHHHHT--
T ss_pred             hHHHHHHhhhcccc---hh---------hHHH----------------------------HH--HHHHHHHHHHHHHh--
Confidence            88888775321000   00         0000                            00  00011111111110  


Q ss_pred             CChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEc
Q 007255          311 KHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFD  390 (611)
Q Consensus       311 ~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iD  390 (611)
                               +.                                                          ....|.|+|||
T Consensus       290 ---------g~----------------------------------------------------------~~v~~~VliID  302 (456)
T 2c9o_A          290 ---------GI----------------------------------------------------------AELVPGVLFVD  302 (456)
T ss_dssp             ---------TS----------------------------------------------------------EEEEECEEEEE
T ss_pred             ---------cc----------------------------------------------------------ccccceEEEEe
Confidence                     00                                                          00113599999


Q ss_pred             ccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCC-------------CcccchhccCCCCccceee
Q 007255          391 EADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR-------------PHAIDAALMRPGRFDLVLY  457 (611)
Q Consensus       391 eid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~-------------~~~ld~al~r~gRf~~~i~  457 (611)
                      |+|.+              .....+.|++.|+  ++...+ ||.+||.             |+.+++.+++  ||.. +.
T Consensus       303 Ea~~l--------------~~~a~~aLlk~lE--e~~~~~-~il~tn~~~~~i~~~~~~~~~~~l~~~i~s--R~~~-~~  362 (456)
T 2c9o_A          303 EVHML--------------DIECFTYLHRALE--SSIAPI-VIFASNRGNCVIRGTEDITSPHGIPLDLLD--RVMI-IR  362 (456)
T ss_dssp             SGGGC--------------BHHHHHHHHHHTT--STTCCE-EEEEECCSEEECBTTSSCEEETTCCHHHHT--TEEE-EE
T ss_pred             chhhc--------------CHHHHHHHHHHhh--ccCCCE-EEEecCCccccccccccccccccCChhHHh--hcce-ee
Confidence            99988              2568899999998  455555 4444432             7788999998  9985 69


Q ss_pred             cCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhC-CCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhc
Q 007255          458 VPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEET-ELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       458 ~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~-~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~  533 (611)
                      |++|+.++..++++..+...... ++..+..++..+ .| +++....+++.|...|..+.  ...|+.+|+..++..+
T Consensus       363 ~~~~~~~e~~~iL~~~~~~~~~~~~~~~~~~i~~~a~~g-~~r~a~~ll~~a~~~A~~~~--~~~v~~~~v~~~~~~~  437 (456)
T 2c9o_A          363 TMLYTPQEMKQIIKIRAQTEGINISEEALNHLGEIGTKT-TLRYSVQLLTPANLLAKING--KDSIEKEHVEEISELF  437 (456)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHHHS-CHHHHHHTHHHHHHHHHHTT--CSSBCHHHHHHHHHHS
T ss_pred             CCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHccCC-CHHHHHHHHHHHHHHHhhcC--CCccCHHHHHHHHHHh
Confidence            99999999999999766433322 334467788877 66 88999999999888887654  4569999999988654

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.95  E-value=5.3e-26  Score=239.01  Aligned_cols=250  Identities=31%  Similarity=0.490  Sum_probs=194.1

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~   96 (611)
                      .+++|+|++.+++.|.+++..+..+++.+...+ .++.++||+||||||||++|+++|++++.+++.++++.+...+.+.
T Consensus       113 ~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~  191 (389)
T 3vfd_A          113 KFDDIAGQDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGE  191 (389)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-CCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC-------
T ss_pred             ChHHhCCHHHHHHHHHHHHHHhccCHHHhcccC-CCCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhhccccch
Confidence            458999999999999999999888877766655 4568999999999999999999999999999999999999999998


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccc
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l  175 (611)
                      ....+..+|..+...    .|+||||||+|.++..... .......++..++..++.....  ...+++||++||.++.+
T Consensus       192 ~~~~~~~~~~~a~~~----~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~--~~~~v~vI~atn~~~~l  265 (389)
T 3vfd_A          192 GEKLVRALFAVAREL----QPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSA--GDDRVLVMGATNRPQEL  265 (389)
T ss_dssp             CHHHHHHHHHHHHHS----SSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-------CEEEEEEESCGGGC
T ss_pred             HHHHHHHHHHHHHhc----CCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhccccc--CCCCEEEEEecCCchhc
Confidence            888899999887754    4899999999999876532 2334567778888888865432  12369999999999999


Q ss_pred             cHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccccc--
Q 007255          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN--  252 (611)
Q Consensus       176 ~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~--  252 (611)
                      ++++++  ||...++++.|+.++|..|++.++...... .+..+..++..+.|++++++..+++.|...++++.....  
T Consensus       266 ~~~l~~--R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~~g~~~~~l~~L~~~a~~~~~rel~~~~~~  343 (389)
T 3vfd_A          266 DEAVLR--RFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDAALGPIRELKPEQVK  343 (389)
T ss_dssp             CHHHHT--TCCEEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHTTTCCHHHHHHHHHHHTTHHHHTSCCC---
T ss_pred             CHHHHc--CcceEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhhhhhhhh
Confidence            999999  998899999999999999999998775443 334689999999999999999999999888877643321  


Q ss_pred             --ccccccchhHHHHHHHHhccCCc
Q 007255          253 --ECAGVLSVTMEDWRHARSVVGPS  275 (611)
Q Consensus       253 --~~~~~~~v~~ed~~~a~~~i~~~  275 (611)
                        .......++.+||..+...+.++
T Consensus       344 ~~~~~~~~~i~~~d~~~al~~~~~s  368 (389)
T 3vfd_A          344 NMSASEMRNIRLSDFTESLKKIKRS  368 (389)
T ss_dssp             CCSSSCCCCCCHHHHHHHHHHCCCS
T ss_pred             ccchhhcCCcCHHHHHHHHHHcCCC
Confidence              11223457888888887766554

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=99.94  E-value=4e-28  Score=242.22  Aligned_cols=246  Identities=35%  Similarity=0.508  Sum_probs=194.4

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccc
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~   94 (611)
                      ...+++|+|++.+++.|.+++.. +..++.+...+...+.++||+||||||||++++++|++++.+++.++++.+...+.
T Consensus         7 ~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~   85 (268)
T 2r62_A            7 NVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFV   85 (268)
T ss_dssp             CCCSTTSSSCTTTHHHHHHHHHH-HHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTSCS
T ss_pred             CCCHHHhCCcHHHHHHHHHHHHH-HHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHhhc
Confidence            34568999999999999998765 77888888999999999999999999999999999999999999999998877777


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC-----chhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee
Q 007255           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-----REQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (611)
Q Consensus        95 ~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~-----~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt  169 (611)
                      +.....++.+|..+...    .|+||||||+|.+...+...     .......+..++..++....   ...++++|+||
T Consensus        86 ~~~~~~~~~~~~~a~~~----~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~---~~~~v~vi~tt  158 (268)
T 2r62_A           86 GLGASRVRDLFETAKKQ----APSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGS---ENAPVIVLAAT  158 (268)
T ss_dssp             SSCSSSSSTTHHHHHHS----CSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSC---SCSCCEEEECB
T ss_pred             chHHHHHHHHHHHHHhc----CCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCccc---CCCCEEEEEec
Confidence            66665666777776543    48999999999998754211     11111234455555554322   22358999999


Q ss_pred             cCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcc
Q 007255          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSS  249 (611)
Q Consensus       170 n~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~  249 (611)
                      |.++.+++++.+++||+..++++.|+.++|.+|++.++.......+.++..++..+.|++|+++.++++.|...+..+. 
T Consensus       159 n~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~~g~dl~~l~~~a~~~a~~~~-  237 (268)
T 2r62_A          159 NRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAGRNN-  237 (268)
T ss_dssp             SCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSCCTTTTTSSSCSSCHHHHHHHHHHHHHTTSSSC-
T ss_pred             CCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhc-
Confidence            9999999999999999999999999999999999999988877777778899999999999999999999987765432 


Q ss_pred             cccccccccchhHHHHHHHHhccCCcc
Q 007255          250 DANECAGVLSVTMEDWRHARSVVGPSI  276 (611)
Q Consensus       250 ~~~~~~~~~~v~~ed~~~a~~~i~~~~  276 (611)
                             ...++.+++..+.....+..
T Consensus       238 -------~~~i~~~~~~~a~~~~~~~~  257 (268)
T 2r62_A          238 -------QKEVRQQHLKEAVERGIAGL  257 (268)
T ss_dssp             -------CCSCCHHHHHTSCTTCCCCC
T ss_pred             -------cCCcCHHHHHHHHHHHhhcc
Confidence                   12477888877766555543

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.94  E-value=5.3e-25  Score=220.65  Aligned_cols=239  Identities=36%  Similarity=0.590  Sum_probs=192.7

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccc
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH   93 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~   93 (611)
                      ....+++++|++++++.+.+.... +..+..+...++..+.+++|+||||||||+++++++..++..++.+++.++....
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~~  113 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMF  113 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHST
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHHH
Confidence            445669999999999999987654 5666778888999999999999999999999999999999999999988877666


Q ss_pred             ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee
Q 007255           94 VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (611)
Q Consensus        94 ~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~----~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt  169 (611)
                      .+.....+..+|+.+...    .|+++++||+|.+......    ........+..++..++.....    ..+++++++
T Consensus       114 ~~~~~~~i~~~~~~~~~~----~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~----~~~i~~a~t  185 (278)
T 1iy2_A          114 VGVGAARVRDLFETAKRH----APCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD----TAIVVMAAT  185 (278)
T ss_dssp             TTHHHHHHHHHHHHHHTS----CSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTT----CCEEEEEEE
T ss_pred             hhHHHHHHHHHHHHHHhc----CCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCC----CCEEEEEec
Confidence            666667777888776532    4899999999988754321    1222344556677777654322    248899999


Q ss_pred             cCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcc
Q 007255          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSS  249 (611)
Q Consensus       170 n~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~  249 (611)
                      |.++.+|+++.+++||+..++++.|+.++|.+|++.+++...+..+.++..++..+.|+++++|.+++++|...+..+..
T Consensus       186 ~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~l~~~a~~~a~~~~~  265 (278)
T 1iy2_A          186 NRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGR  265 (278)
T ss_dssp             SCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             CCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999998887777788899999999999999999999999887765321


Q ss_pred             cccccccccchhHHHHHHHH
Q 007255          250 DANECAGVLSVTMEDWRHAR  269 (611)
Q Consensus       250 ~~~~~~~~~~v~~ed~~~a~  269 (611)
                              ..++.+|+..+.
T Consensus       266 --------~~I~~~dl~~a~  277 (278)
T 1iy2_A          266 --------RKITMKDLEEAA  277 (278)
T ss_dssp             --------CSBCHHHHHHHT
T ss_pred             --------CCcCHHHHHHHh
Confidence                    247777776653

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.93  E-value=1.1e-26  Score=234.24  Aligned_cols=176  Identities=20%  Similarity=0.273  Sum_probs=139.0

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHH----HhcCCcEEEEcccccc
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRA----RLAAPSIIFFDEADVV  395 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a----~~~~p~il~iDeid~l  395 (611)
                      +.++|+++|||||||||||++|+++|++++.+++.++++++.++|.|..+..++.+|..+    +...|+||||||+|.+
T Consensus        32 ~~~~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~~  111 (293)
T 3t15_A           32 NIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAG  111 (293)
T ss_dssp             TCCCCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCEEEECCC--
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEEEEechhhh
Confidence            567789999999999999999999999999999999999999999999999999999998    4668999999999999


Q ss_pred             cccCCCCCCCCcchhHHHHHHHHHHhcCCC-----------CCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHH
Q 007255          396 GAKRGGSSSTSITVGERLLSTLLTEMDGLE-----------QAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLE  464 (611)
Q Consensus       396 ~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~  464 (611)
                      ++++++... ......++.+.|+..||+..           ...+++||+|||.++.+|++++|+|||+..+++  |+.+
T Consensus       112 ~~~~~~~~~-~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~~--P~~~  188 (293)
T 3t15_A          112 AGRMGGTTQ-YTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYWA--PTRE  188 (293)
T ss_dssp             -------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEEC--CCHH
T ss_pred             cCCCCCCcc-ccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEeC--cCHH
Confidence            875543221 12234577899999998443           456799999999999999999999999988874  6999


Q ss_pred             HHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHH
Q 007255          465 ARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEG  502 (611)
Q Consensus       465 ~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~  502 (611)
                      +|.+|++.++..    .+++++.++..++||++++|..
T Consensus       189 ~r~~Il~~~~~~----~~~~~~~l~~~~~~~~~~~l~~  222 (293)
T 3t15_A          189 DRIGVCTGIFRT----DNVPAEDVVKIVDNFPGQSIDF  222 (293)
T ss_dssp             HHHHHHHHHHGG----GCCCHHHHHHHHHHSCSCCHHH
T ss_pred             HHHHHHHHhccC----CCCCHHHHHHHhCCCCcccHHH
Confidence            999999977763    3567889999999999998864

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=99.91  E-value=2.9e-23  Score=216.96  Aligned_cols=383  Identities=20%  Similarity=0.248  Sum_probs=188.8

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCC-CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc-ccccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGL-KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-AHVGE   96 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~-~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~-~~~~~   96 (611)
                      ++|+|++++|+.|..++..++.+.+....++. .++.++||+||||||||++++++|+.++.+++.++++.+.. .+.|.
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~~g~vG~   94 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcccceeec
Confidence            47899999999999999887665544433333 25689999999999999999999999999999999988877 47774


Q ss_pred             -hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEe-ecCccc
Q 007255           97 -SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS-TNRVDA  174 (611)
Q Consensus        97 -~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t-tn~~~~  174 (611)
                       .+..++.+|..+...        +++||++.+....  ......+++.+|+..||......    .+  +++ ||.++.
T Consensus        95 d~e~~lr~lf~~a~~~--------~~~De~d~~~~~~--~~~~e~rvl~~LL~~~dg~~~~~----~v--~a~~TN~~~~  158 (444)
T 1g41_A           95 EVDSIIRDLTDSAMKL--------VRQQEIAKNRARA--EDVAEERILDALLPPAKNQWGEV----EN--HDSHSSTRQA  158 (444)
T ss_dssp             CTHHHHHHHHHHHHHH--------HHHHHHHSCC----------------------------------------------
T ss_pred             cHHHHHHHHHHHHHhc--------chhhhhhhhhccc--hhhHHHHHHHHHHHHhhcccccc----cc--ccccccCHHH
Confidence             788889999887653        3489988765432  23345578889999988764321    22  444 999999


Q ss_pred             ccHHhhccCCcceEEEccCCCHH-HHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccc
Q 007255          175 IDPALRRSGRFDAEVEVTVPTAE-ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE  253 (611)
Q Consensus       175 l~~~l~~~~Rf~~~i~~~~p~~~-~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~  253 (611)
                      +|+++++++||+..|+++.|+.. .+.+|+..  .+        +..+        +.++..+...              
T Consensus       159 ld~aL~rggr~D~~i~i~lP~~~~~~~ei~~~--~g--------~~~~--------~~~~~~~~~~--------------  206 (444)
T 1g41_A          159 FRKKLREGQLDDKEIEIDVSAGVSMGVEIMAP--PG--------MEEM--------TNQLQSLFQN--------------  206 (444)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHcCCCcceEEEEcCCCCccchhhhhcC--CC--------hHHH--------HHHHHHHHHh--------------
Confidence            99999999999999999999987 66666553  00        0000        0001000000              


Q ss_pred             cccccchhHHHHHHHHhccCCcccccccccCCCcccccccchhHHHHH--HHHHhhccCCChhHHhhcCCCCCCCcceeC
Q 007255          254 CAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKK--LQQAVEWPIKHSTAFSRLGISPVRGALLHG  331 (611)
Q Consensus       254 ~~~~~~v~~ed~~~a~~~i~~~~~~~~~~~~~~~~~~~i~g~~~~k~~--l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~G  331 (611)
                                                            +.+....++.  +.++..                   +|   
T Consensus       207 --------------------------------------~~~~~~~~~~~~v~~a~~-------------------~l---  226 (444)
T 1g41_A          207 --------------------------------------LGSDKTKKRKMKIKDALK-------------------AL---  226 (444)
T ss_dssp             ----------------------------------------------------------------------------C---
T ss_pred             --------------------------------------hcCCCCcceeeeHHHHHH-------------------HH---
Confidence                                                  0000000000  000000                   00   


Q ss_pred             CCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchh-
Q 007255          332 PPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVG-  410 (611)
Q Consensus       332 p~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~-  410 (611)
                                           ....    ..+.+ +.+...+.....+...  .|+|+||+|++..+.+.  . ..+.+ 
T Consensus       227 ---------------------~~~e----~~~l~-~~~~~~~~ai~~ae~~--~il~~DEidki~~~~~~--~-~~D~s~  275 (444)
T 1g41_A          227 ---------------------IDDE----AAKLI-NPEELKQKAIDAVEQN--GIVFIDEIDKICKKGEY--S-GADVSR  275 (444)
T ss_dssp             ---------------------CGGG----SCSSC-CHHHHHHHHHHHHHHH--CEEEEETGGGGSCCSSC--S-SSHHHH
T ss_pred             ---------------------HHHH----HHHcc-CHHHHHHHHHHHhccC--CeeeHHHHHHHhhccCC--C-CCCchH
Confidence                                 0000    01111 2344444555554322  29999999999765331  1 22333 


Q ss_pred             HHHHHHHHHHhcCCC--------CCCCeEEEEec----CCCcccchhccCCCCccceeecCCCCHHHHHHHHHH------
Q 007255          411 ERLLSTLLTEMDGLE--------QAKGILVLAAT----NRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRV------  472 (611)
Q Consensus       411 ~~~~~~ll~~l~~~~--------~~~~~~vI~~t----n~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~------  472 (611)
                      .-++.+||..||+..        ..++++||+|.    +.|.++.|.|+.  ||+.++.|+.++.++..+|+..      
T Consensus       276 egvq~aLL~~le~~~~~~~~~~~d~~~ilfI~~gaf~~~~~~dlipel~~--R~~i~i~l~~lt~~e~~~Il~~~~~~l~  353 (444)
T 1g41_A          276 EGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQG--RLPIRVELTALSAADFERILTEPHASLT  353 (444)
T ss_dssp             HHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSCCGGGSCHHHHT--TCCEEEECCCCCHHHHHHHHHSSTTCHH
T ss_pred             HHHHHHHHHHhcccccccccceecCCcEEEEeccccccCChhhcchHHhc--ccceeeeCCCCCHHHHHHHHHHHHHhHH
Confidence            347789999999731        35679999887    345556688887  9999999999999999999931      


Q ss_pred             --H-----hcCCCCC-CcccHHHHHHh-------CCCCCHHHHHHHHHHHHHHHHHhhc----ccccccHHHHHHHHhhc
Q 007255          473 --H-----TRNMKVG-DDVDLRSIAEE-------TELFTGAELEGLCREAGIVALREDI----SATAVRNRHFQTVKDSL  533 (611)
Q Consensus       473 --~-----~~~~~~~-~~~~~~~la~~-------~~g~s~~~i~~~~~~a~~~a~~~~~----~~~~i~~~~~~~~l~~~  533 (611)
                        +     +.+..+. ++..+..+++.       +...-.+.++.++..++.....+..    ....|+..++...+   
T Consensus       354 ~q~~~~~~~~~~~l~~~~~al~~i~~~a~~~~~~t~~~GaR~L~~~ie~~~~~~~~~~~~~~~~~~~i~~~~v~~~l---  430 (444)
T 1g41_A          354 EQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADAL---  430 (444)
T ss_dssp             HHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHHHHHHHHHHGGGCTTCEEEECHHHHHHHH---
T ss_pred             HHHHHHhcccCceEEECHHHHHHHHHHHHHhccCCccCCchHHHHHHHHHHHHHHhhccccCCCeEEEeHHHHHHhc---
Confidence              1     1122211 33445666653       3455566777766666555544432    22357777777655   


Q ss_pred             CCCCCHHHHHHH
Q 007255          534 KPALTKEEIDSY  545 (611)
Q Consensus       534 ~~~~~~~~~~~~  545 (611)
                      .+.+..+++.+|
T Consensus       431 ~~~~~~~dl~~~  442 (444)
T 1g41_A          431 GEVVENEDLSRF  442 (444)
T ss_dssp             TTTTTCHHHHHH
T ss_pred             CccccCCChhcc
Confidence            555666666655

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=99.89  E-value=1.9e-25  Score=239.25  Aligned_cols=205  Identities=23%  Similarity=0.314  Sum_probs=146.3

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC--CcEEeecchhhc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE--ASFFSLSGAELY  361 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~--~~~~~~~~~~~~  361 (611)
                      .|...|++++|++.+++.+.+++...        +.+..+++++||+||||||||++|+++|++++  .+|+.++++++.
T Consensus        31 ~~~~~~~~iiG~~~~~~~l~~~~~~~--------~~~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~  102 (456)
T 2c9o_A           31 LAKQAASGLVGQENAREACGVIVELI--------KSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVY  102 (456)
T ss_dssp             CBCSEETTEESCHHHHHHHHHHHHHH--------HTTCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGC
T ss_pred             ChhhchhhccCHHHHHHHHHHHHHHH--------HhCCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHH
Confidence            35667999999999999988876531        23566778999999999999999999999999  999999999999


Q ss_pred             cccccchHHHHHHHHHHH---HhcCCcEEEEcccccccccCCCCCCCCc----------------chhHHHHHHHHHHhc
Q 007255          362 SMYVGESEALLRNTFQRA---RLAAPSIIFFDEADVVGAKRGGSSSTSI----------------TVGERLLSTLLTEMD  422 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a---~~~~p~il~iDeid~l~~~~~~~~~~~~----------------~~~~~~~~~ll~~l~  422 (611)
                      ++|.|+++. ++..|..+   +...|+||||||+|.++++++....+..                ....++.+.++..++
T Consensus       103 ~~~~~~~~~-~~~~f~~a~~~~~~~~~il~iDEid~l~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ll~~l~  181 (456)
T 2c9o_A          103 STEIKKTEV-LMENFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQ  181 (456)
T ss_dssp             CSSSCHHHH-HHHHHHHTEEEEEEEEEEEEEEEEEEEEEC--------------CEEEEEEETTEEEEEEECHHHHHHHH
T ss_pred             HHhhhhhHH-HHHHHHHHHhhhhcCCcEEEEechhhcccccCCCCCCCcchHHHHHHHHHhccccchhHhhhHHHHHHHh
Confidence            999999987 89999998   7788999999999999988854422110                011133344665554


Q ss_pred             --CCCCCCCeEEEEecCCCcccchhccCCCCccc--eeecCCCC--HHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCC
Q 007255          423 --GLEQAKGILVLAATNRPHAIDAALMRPGRFDL--VLYVPPPD--LEARHEILRVHTRNMKVGDDVDLRSIAEETELFT  496 (611)
Q Consensus       423 --~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~--~i~~~~p~--~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s  496 (611)
                        ++...+.++|++|||+++.+|++++||||||.  .+++|.|+  .++|.+|++.+..       .+++.++..++|  
T Consensus       182 ~~~~~~~~~v~i~attn~~~~ld~a~~r~~rfd~~~~~~v~~p~~~~~~R~~il~~~~~-------~dl~~~a~~t~g--  252 (456)
T 2c9o_A          182 KERVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVHKKKEIIQDVTL-------HDLDVANARPQG--  252 (456)
T ss_dssp             HTTCCTTEEEEEETTTCCEEEEEEETTSCCTTSCSSSSEECCCCSCSEEEEEEEEEEEH-------HHHHHTC-------
T ss_pred             hccCCCCCEEEEEcCCCCcccCChhhcCCcccCcceeEecCCCchhHHHHHHHHHHHHH-------HHHHHHHHhCCC--
Confidence              33445556677999999999999999999998  67777775  4778888764332       378899999999  


Q ss_pred             HHHHHHHHHH
Q 007255          497 GAELEGLCRE  506 (611)
Q Consensus       497 ~~~i~~~~~~  506 (611)
                      |+|+.++|..
T Consensus       253 gadl~~l~~~  262 (456)
T 2c9o_A          253 GQDILSMMGQ  262 (456)
T ss_dssp             ----------
T ss_pred             hhHHHHHHhh
Confidence            9999999854

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.89  E-value=4.1e-23  Score=207.98  Aligned_cols=183  Identities=21%  Similarity=0.353  Sum_probs=138.9

Q ss_pred             cCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        48 ~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      .+.++|.++||+||||||||++++++|++++.+++.++++++...+.|.....++.+|..+........|+||||||+|.
T Consensus        31 ~~~~~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~  110 (293)
T 3t15_A           31 PNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDA  110 (293)
T ss_dssp             TTCCCCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCEEEECCC-
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEEEEechhh
Confidence            35678899999999999999999999999999999999999999999999999999999886544456799999999999


Q ss_pred             cCCCCCCCch---hhHHHHHHHHHHHhcCCC-------CCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHH
Q 007255          128 LCPRRDHRRE---QDVRIASQLFTLMDSNKP-------SKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAE  197 (611)
Q Consensus       128 l~~~~~~~~~---~~~~~~~~ll~~l~~~~~-------~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~  197 (611)
                      +++..++...   ....++..|++++|....       ......++++|+|||.++.+|++++|++||+..++  .|+.+
T Consensus       111 ~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~--~P~~~  188 (293)
T 3t15_A          111 GAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW--APTRE  188 (293)
T ss_dssp             -------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEE--CCCHH
T ss_pred             hcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEe--CcCHH
Confidence            9885442222   344677899999984321       11123468999999999999999999999987776  57999


Q ss_pred             HHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHH
Q 007255          198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEAL  236 (611)
Q Consensus       198 ~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l  236 (611)
                      +|.+|++.++...    ..+...++..+.||++.++..+
T Consensus       189 ~r~~Il~~~~~~~----~~~~~~l~~~~~~~~~~~l~~~  223 (293)
T 3t15_A          189 DRIGVCTGIFRTD----NVPAEDVVKIVDNFPGQSIDFF  223 (293)
T ss_dssp             HHHHHHHHHHGGG----CCCHHHHHHHHHHSCSCCHHHH
T ss_pred             HHHHHHHHhccCC----CCCHHHHHHHhCCCCcccHHHH
Confidence            9999999887633    4568899999999999998643

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.87  E-value=1.5e-21  Score=198.67  Aligned_cols=224  Identities=17%  Similarity=0.244  Sum_probs=171.8

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCCCC---CCCcceeCCCCCChHHHHHHHHHHh-------CCcEEeecchh
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISP---VRGALLHGPPGCSKTTLAKAAAHAA-------EASFFSLSGAE  359 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~---~~~~Ll~Gp~G~GKT~la~ala~~~-------~~~~~~~~~~~  359 (611)
                      .+++|++.+++.+.+.+..+. .+..+.++|..+   +.++||+||||||||++|+++|+.+       ..+++.+++++
T Consensus        31 ~~i~G~~~~~~~l~~~~~~~~-~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~  109 (309)
T 3syl_A           31 RELIGLKPVKDRIRETAALLL-VERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDD  109 (309)
T ss_dssp             HHSSSCHHHHHHHHHHHHHHH-HHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGG
T ss_pred             HHccChHHHHHHHHHHHHHHH-hHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHH
Confidence            379999999999999887643 355555555443   4569999999999999999999998       34899999999


Q ss_pred             hccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCC
Q 007255          360 LYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP  439 (611)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~  439 (611)
                      +.+.+.|.....+..+|..+   .++||||||+|.+.+.+..     .......++.|+..|+.  ...++++|++||.+
T Consensus       110 l~~~~~g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~-----~~~~~~~~~~Ll~~l~~--~~~~~~~i~~~~~~  179 (309)
T 3syl_A          110 LVGQYIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNE-----RDYGQEAIEILLQVMEN--NRDDLVVILAGYAD  179 (309)
T ss_dssp             TCCSSTTCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC--------CCTHHHHHHHHHHHHH--CTTTCEEEEEECHH
T ss_pred             hhhhcccccHHHHHHHHHhc---CCCEEEEEChhhhccCCCc-----ccccHHHHHHHHHHHhc--CCCCEEEEEeCChH
Confidence            99999999988888888776   4679999999999755432     23356788999999983  55678999999876


Q ss_pred             c-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHh-------CCCCCHHHHHHHHHH
Q 007255          440 H-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEE-------TELFTGAELEGLCRE  506 (611)
Q Consensus       440 ~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~-------~~g~s~~~i~~~~~~  506 (611)
                      +     .++|++++  ||+.++.|+.|+.+++.+|++.++...... ++..+..++..       ...-+.+++.+++..
T Consensus       180 ~~~~~~~~~~~l~~--R~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~gn~r~l~~~l~~  257 (309)
T 3syl_A          180 RMENFFQSNPGFRS--RIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRRNQPHFANARSIRNALDR  257 (309)
T ss_dssp             HHHHHHHHSTTHHH--HEEEEEEECCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHTTSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHhhCHHHHH--hCCeEEEcCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHH
Confidence            4     35799998  999999999999999999999888765543 23335556654       222358999999999


Q ss_pred             HHHHHHHhhccc--ccccHHHH
Q 007255          507 AGIVALREDISA--TAVRNRHF  526 (611)
Q Consensus       507 a~~~a~~~~~~~--~~i~~~~~  526 (611)
                      +...+..+.+..  ..++.+++
T Consensus       258 a~~~~~~r~~~~~~~~~~~~~l  279 (309)
T 3syl_A          258 ARLRQANRLFTASSGPLDARAL  279 (309)
T ss_dssp             HHHHHHHHHHHC---CEEHHHH
T ss_pred             HHHHHHHHHHhccCCCCCHHHH
Confidence            988776665432  44554444

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.84  E-value=3.4e-20  Score=188.67  Aligned_cols=216  Identities=21%  Similarity=0.269  Sum_probs=165.0

Q ss_pred             ccc-ccCCcHHHHHHHHHHHHhhhhCchHHHhcCCC---CCceEEEEcCCCCcHHHHHHHHHHHh-------CCcEEEEc
Q 007255           17 AEE-AIGGNRAAVEALRELITFPLLYSSQAQKLGLK---WPRGLLLYGPPGTGKTSLVRAVVREC-------GAHLTVIS   85 (611)
Q Consensus        17 ~~~-~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~---~~~~iLl~Gp~GtGKT~la~~la~~l-------~~~~~~v~   85 (611)
                      .++ +|+|++++++.|.+.+..+.. +......|+.   ++.++||+||||||||++++++|+.+       ..+++.++
T Consensus        28 ~l~~~i~G~~~~~~~l~~~~~~~~~-~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~  106 (309)
T 3syl_A           28 ELDRELIGLKPVKDRIRETAALLLV-ERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVT  106 (309)
T ss_dssp             HHHHHSSSCHHHHHHHHHHHHHHHH-HHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEEC
T ss_pred             HHHHHccChHHHHHHHHHHHHHHHh-HHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEc
Confidence            344 799999999999998877543 5555555654   34579999999999999999999988       34899999


Q ss_pred             ccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEE
Q 007255           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVV  165 (611)
Q Consensus        86 ~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~i  165 (611)
                      ++++...+.+.....+...|..+.       ++||||||+|.++...+. .......+..|+..++...      .++++
T Consensus       107 ~~~l~~~~~g~~~~~~~~~~~~~~-------~~vl~iDEid~l~~~~~~-~~~~~~~~~~Ll~~l~~~~------~~~~~  172 (309)
T 3syl_A          107 RDDLVGQYIGHTAPKTKEVLKRAM-------GGVLFIDEAYYLYRPDNE-RDYGQEAIEILLQVMENNR------DDLVV  172 (309)
T ss_dssp             GGGTCCSSTTCHHHHHHHHHHHHT-------TSEEEEETGGGSCCCC----CCTHHHHHHHHHHHHHCT------TTCEE
T ss_pred             HHHhhhhcccccHHHHHHHHHhcC-------CCEEEEEChhhhccCCCc-ccccHHHHHHHHHHHhcCC------CCEEE
Confidence            999998888888888888887763       679999999999865432 2335578889999998743      25688


Q ss_pred             EEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcc-cHHHHHHhc-------cCCcccc
Q 007255          166 VASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSC-------NGYVGAD  232 (611)
Q Consensus       166 i~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~-~~~~la~~~-------~g~~~~d  232 (611)
                      |+++|...     .++|++++  ||...++|++|+.+++.+|++.++.......+. .+..++...       ...++++
T Consensus       173 i~~~~~~~~~~~~~~~~~l~~--R~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~gn~r~  250 (309)
T 3syl_A          173 ILAGYADRMENFFQSNPGFRS--RIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRRNQPHFANARS  250 (309)
T ss_dssp             EEEECHHHHHHHHHHSTTHHH--HEEEEEEECCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHTTSSSCCHHHH
T ss_pred             EEeCChHHHHHHHhhCHHHHH--hCCeEEEcCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhccCCCCCcHHH
Confidence            88887643     35799998  998899999999999999999998766543222 245555442       2234788


Q ss_pred             HHHHHHHHHHHHhhhcc
Q 007255          233 LEALCREATMSAVKRSS  249 (611)
Q Consensus       233 l~~l~~~a~~~a~~r~~  249 (611)
                      +.++++.+...+..+..
T Consensus       251 l~~~l~~a~~~~~~r~~  267 (309)
T 3syl_A          251 IRNALDRARLRQANRLF  267 (309)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999998877666543

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.83  E-value=4.1e-20  Score=192.91  Aligned_cols=219  Identities=20%  Similarity=0.311  Sum_probs=161.3

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC--cEEeecchhhcc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA--SFFSLSGAELYS  362 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~--~~~~~~~~~~~~  362 (611)
                      |..+|++++|++..++.+.......        ..+..+++++||+||||||||++|+++|+.++.  +++.+++..+..
T Consensus        39 p~~~~~~ivG~~~~~~~l~~l~~~~--------~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~~~~  110 (368)
T 3uk6_A           39 PRQASQGMVGQLAARRAAGVVLEMI--------REGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFS  110 (368)
T ss_dssp             BCSEETTEESCHHHHHHHHHHHHHH--------HTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGGGSC
T ss_pred             cCcchhhccChHHHHHHHHHHHHHH--------HcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchhhhh
Confidence            4455999999999988866554321        114455689999999999999999999999975  777887766444


Q ss_pred             ccccc-------------------------------------------------hHHHHHHHHHHHHh-----c----CC
Q 007255          363 MYVGE-------------------------------------------------SEALLRNTFQRARL-----A----AP  384 (611)
Q Consensus       363 ~~~g~-------------------------------------------------~~~~~~~~~~~a~~-----~----~p  384 (611)
                      .+.+.                                                 ....++..+..+..     .    .|
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~  190 (368)
T 3uk6_A          111 LEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIP  190 (368)
T ss_dssp             SSSCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CB
T ss_pred             cccchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccC
Confidence            33222                                                 12334444443322     1    26


Q ss_pred             cEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEec-----------CCCcccchhccCCCCcc
Q 007255          385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAAT-----------NRPHAIDAALMRPGRFD  453 (611)
Q Consensus       385 ~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~t-----------n~~~~ld~al~r~gRf~  453 (611)
                      +||||||+|.+.              ....+.|++.++.  ....+++++++           |.++.+++++++  ||.
T Consensus       191 ~vl~IDEi~~l~--------------~~~~~~L~~~le~--~~~~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~s--R~~  252 (368)
T 3uk6_A          191 GVLFIDEVHMLD--------------IESFSFLNRALES--DMAPVLIMATNRGITRIRGTSYQSPHGIPIDLLD--RLL  252 (368)
T ss_dssp             CEEEEESGGGSB--------------HHHHHHHHHHTTC--TTCCEEEEEESCSEEECBTSSCEEETTCCHHHHT--TEE
T ss_pred             ceEEEhhccccC--------------hHHHHHHHHHhhC--cCCCeeeeecccceeeeeccCCCCcccCCHHHHh--hcc
Confidence            799999999872              4567888888873  34455555544           347789999999  998


Q ss_pred             ceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhh
Q 007255          454 LVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDS  532 (611)
Q Consensus       454 ~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~  532 (611)
                      . +.|++|+.+++.+|++..+...... ++..++.+++.+.+.+++++.++|..|...|..+.  ...|+.+++..++..
T Consensus       253 ~-i~~~~~~~~e~~~il~~~~~~~~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~~--~~~It~~~v~~a~~~  329 (368)
T 3uk6_A          253 I-VSTTPYSEKDTKQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRK--GTEVQVDDIKRVYSL  329 (368)
T ss_dssp             E-EEECCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTT--CSSBCHHHHHHHHHH
T ss_pred             E-EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhC--CCCCCHHHHHHHHHH
Confidence            5 8999999999999999777654433 34557889999884489999999999998887653  568999999999976

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.82  E-value=3.9e-21  Score=227.83  Aligned_cols=157  Identities=19%  Similarity=0.215  Sum_probs=112.8

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCC----------hhHHhh------cCC----------CCCCC--cceeCCCC
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKH----------STAFSR------LGI----------SPVRG--ALLHGPPG  334 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~----------~~~~~~------~~~----------~~~~~--~Ll~Gp~G  334 (611)
                      ..+.++|+++.|++++|+.+.+.+.||+.+          ++.++.      .|.          .+|+|  +|+|||||
T Consensus      1013 ~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~g 1092 (1706)
T 3cmw_A         1013 SASGSSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPES 1092 (1706)
T ss_dssp             -----------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTT
T ss_pred             ccCCceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCCC
Confidence            345589999999999999999999998844          445554      222          24455  99999999


Q ss_pred             CChHHHHHHHHHHh---CCcEEeecchh----hc--------cccccc----hHHHHHHHHHHHHhcCCcEEEEcccccc
Q 007255          335 CSKTTLAKAAAHAA---EASFFSLSGAE----LY--------SMYVGE----SEALLRNTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       335 ~GKT~la~ala~~~---~~~~~~~~~~~----~~--------~~~~g~----~~~~~~~~~~~a~~~~p~il~iDeid~l  395 (611)
                      ||||++|++++.+.   +.+.+.++..+    ++        ++|.++    +|+.++.+|..|+...|+++|+|+++.|
T Consensus      1093 ~GKT~la~~~~~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~~~~~i~~d~~~al 1172 (1706)
T 3cmw_A         1093 SGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAAL 1172 (1706)
T ss_dssp             SSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGGC
T ss_pred             CChHHHHHHHHHHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhcCCeEEEeCchHhc
Confidence            99999999999887   34444444443    33        567777    8999999999999999999999999999


Q ss_pred             cccC---CCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCc
Q 007255          396 GAKR---GGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH  440 (611)
Q Consensus       396 ~~~~---~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~  440 (611)
                      ++.+   +..++.......|+++++|..|+++....+++|| +||+..
T Consensus      1173 ~~~~~~~g~~~~~~~~~~~r~~~q~l~~~~~~~~~~~v~v~-~~n~~~ 1219 (1706)
T 3cmw_A         1173 TPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLI-FINQIR 1219 (1706)
T ss_dssp             CCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHHTTCEEE-EEECEE
T ss_pred             CcccccccccccccccHHHHHHHHHHHHHHhhhccCCeEEE-Eecccc
Confidence            9884   3333323356778999999999988888888888 777643

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=99.82  E-value=2.3e-19  Score=221.71  Aligned_cols=326  Identities=16%  Similarity=0.168  Sum_probs=199.1

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh-CCcEEEEcccccccccccchHHHHHHHHHHHHh----------hh-hcCCCeE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC-GAHLTVISPHSVHKAHVGESEKALREAFSQASS----------HA-LSGKPSV  119 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l-~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~----------~~-~~~~~~i  119 (611)
                      ..+++||+||||||||++|+.++... +..++.++.+....      ...+...++....          .+ ..++++|
T Consensus      1266 ~~~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infsa~ts------~~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~V 1339 (2695)
T 4akg_A         1266 SKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTT------TEHILSALHRHTNYVTTSKGLTLLPKSDIKNLV 1339 (2695)
T ss_dssp             HTCEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECCTTCC------HHHHHHHHHHHBCCEEETTTEEEEEBSSSSCEE
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEeecCCC------HHHHHHHHHHHhhhccccCCccccCCCCCceEE
Confidence            34799999999999999996555444 66777777654432      2234444443211          01 1345789


Q ss_pred             EEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCC------CCCCCCcEEEEEeecCcc-----cccHHhhccCCcceE
Q 007255          120 VFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP------SKTSVPHVVVVASTNRVD-----AIDPALRRSGRFDAE  188 (611)
Q Consensus       120 l~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~------~~~~~~~v~ii~ttn~~~-----~l~~~l~~~~Rf~~~  188 (611)
                      +||||+|..... ..+.....++++++   ++....      ......++.+|++||++.     .+++++.|  || ..
T Consensus      1340 lFiDEinmp~~d-~yg~q~~lelLRq~---le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllR--rf-~v 1412 (2695)
T 4akg_A         1340 LFCDEINLPKLD-KYGSQNVVLFLRQL---MEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTR--HA-AI 1412 (2695)
T ss_dssp             EEEETTTCSCCC-SSSCCHHHHHHHHH---HHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHT--TE-EE
T ss_pred             EEeccccccccc-ccCchhHHHHHHHH---HhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhh--ee-eE
Confidence            999999853332 23333344444444   443211      111123589999999984     89999999  98 58


Q ss_pred             EEccCCCHHHHHHHHHHhhcCCC---------------------------------CCCcccHHHHHHhccCCcc-----
Q 007255          189 VEVTVPTAEERFEILKLYTKKVP---------------------------------LDANVDLEAIATSCNGYVG-----  230 (611)
Q Consensus       189 i~~~~p~~~~r~~Il~~~~~~~~---------------------------------~~~~~~~~~la~~~~g~~~-----  230 (611)
                      ++++.|+.+++..|++.++....                                 .+...+++++++.++|...     
T Consensus      1413 i~i~~P~~~~l~~I~~~il~~~l~~~~~v~~~~~~lv~ati~~y~~v~~~~~~~~k~HY~FnlRDLsrv~qGll~~~~~~ 1492 (2695)
T 4akg_A         1413 LYLGYPSGKSLSQIYEIYYKAIFKLVPEFRSYTEPFARASVHLYNECKARYSTGLQSHYLFSPRELTRLVRGVYTAINTG 1492 (2695)
T ss_dssp             EECCCCTTTHHHHHHHHHHHHHTTSSGGGGGGHHHHHHHHHHHHHHHHHHSCTTTCTTCCCCHHHHHHHHHHHHHHHHTS
T ss_pred             EEeCCCCHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCCcccCHHHHHHHHHHHHhcCchh
Confidence            99999999999999987764321                                 1112335555555555321     


Q ss_pred             --ccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhccCCcccc-------cccccCCCcccccccchhHHHHH
Q 007255          231 --ADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITR-------GVTVEIPKVTWEDIGGLRDLKKK  301 (611)
Q Consensus       231 --~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~~~-------~~~~~~~~~~~~~i~g~~~~k~~  301 (611)
                        .+...+++.+.+++.+-+.+.-..........+-+........+....       ..-.+.-...++++. .+.+++.
T Consensus      1493 ~~~~~~~l~rLw~HE~~Rvf~DRLv~~~D~~~f~~~l~~~~~~~f~~~~~~~~~~~~~~f~df~~~~Y~~v~-~~~l~~~ 1571 (2695)
T 4akg_A         1493 PRQTLRSLIRLWAYEAWRIFADRLVGVKEKNSFEQLLYETVDKYLPNQDLGNISSTSLLFSGLLSLDFKEVN-KTDLVNF 1571 (2695)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHTTTCCSSHHHHHHHHHHHHHHHHHSCCSCCCCCSTTTCCEESSSSSSCEECC-HHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcccchhhhccCCceeeecCCCcceecC-HHHHHHH
Confidence              234566666777777766665443333333333333332222111100       000011112355553 3555655


Q ss_pred             HHHHhhc---------------cCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccccc
Q 007255          302 LQQAVEW---------------PIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVG  366 (611)
Q Consensus       302 l~~~~~~---------------~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g  366 (611)
                      +.+.+..               ++.|..++.|.-..|..++||+|++||||+++++..|...+..++.+..+.-++  ..
T Consensus      1572 l~~~l~~yn~~~~~m~LVlF~dai~Hi~RI~Ril~~p~G~~LLvGvgGsGkqSltrLaa~i~~~~~fqi~~~~~Y~--~~ 1649 (2695)
T 4akg_A         1572 IEERFKTFCDEELEVPMVIHESMVDHILRIDRALKQVQGHMMLIGASRTGKTILTRFVAWLNGLKIVQPKIHRHSN--LS 1649 (2695)
T ss_dssp             HHHHHHHHHHHSCCCCCCCCHHHHHHHHHHHHHHHSSSEEEEEECTTTSCHHHHHHHHHHHTTCEEECCCCCTTCC--HH
T ss_pred             HHHHHHHHHhhcCCceeeeHHHHHHHHHHHHHHHcCCCCCEEEECCCCCcHHHHHHHHHHHhCCeeEEEEeeCCCC--HH
Confidence            5555432               233445555555677789999999999999999999999999999998765433  34


Q ss_pred             chHHHHHHHHHHHHh-cCCcEEEEcccc
Q 007255          367 ESEALLRNTFQRARL-AAPSIIFFDEAD  393 (611)
Q Consensus       367 ~~~~~~~~~~~~a~~-~~p~il~iDeid  393 (611)
                      +....++.++..|.. ..|.+++++|.+
T Consensus      1650 ~f~eDLk~l~~~aG~~~~~~vFL~tD~q 1677 (2695)
T 4akg_A         1650 DFDMILKKAISDCSLKESRTCLIIDESN 1677 (2695)
T ss_dssp             HHHHHHHHHHHHHHHSCCCEEEEEETTT
T ss_pred             HHHHHHHHHHHHcCCCCCceEEEEeccc
Confidence            556778999988854 557677777664

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.81  E-value=1.5e-18  Score=178.80  Aligned_cols=218  Identities=18%  Similarity=0.188  Sum_probs=165.1

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      .+.+.+|++++|++.+++.+...+.....        ...++.++||+||||||||++|+++|..++.+++.++++.+..
T Consensus        22 ~~~p~~~~~iiG~~~~~~~l~~~l~~~~~--------~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~~   93 (338)
T 3pfi_A           22 SLRPSNFDGYIGQESIKKNLNVFIAAAKK--------RNECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEK   93 (338)
T ss_dssp             -CCCCSGGGCCSCHHHHHHHHHHHHHHHH--------TTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCCS
T ss_pred             ccCCCCHHHhCChHHHHHHHHHHHHHHHh--------cCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhccc
Confidence            34556899999999999999988764211        1244568999999999999999999999999999999876532


Q ss_pred             ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC----------------
Q 007255          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ----------------  426 (611)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~----------------  426 (611)
                            ...+...+..  ...+++|||||+|.+.              ......|+..|+...-                
T Consensus        94 ------~~~~~~~~~~--~~~~~vl~lDEi~~l~--------------~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~  151 (338)
T 3pfi_A           94 ------SGDLAAILTN--LSEGDILFIDEIHRLS--------------PAIEEVLYPAMEDYRLDIIIGSGPAAQTIKID  151 (338)
T ss_dssp             ------HHHHHHHHHT--CCTTCEEEEETGGGCC--------------HHHHHHHHHHHHTSCC---------CCCCCCC
T ss_pred             ------hhHHHHHHHh--ccCCCEEEEechhhcC--------------HHHHHHHHHHHHhccchhhcccCccccceecC
Confidence                  2223333322  3467899999999873              3456777777764320                


Q ss_pred             CCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHH
Q 007255          427 AKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCR  505 (611)
Q Consensus       427 ~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~  505 (611)
                      ..++++|++||.+..+++++++  ||+..+.++.|+.+++..+++......... ++..++.++..+.| +.+++.+++.
T Consensus       152 ~~~~~~i~atn~~~~l~~~L~~--R~~~~i~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~l~~~~~G-~~r~l~~~l~  228 (338)
T 3pfi_A          152 LPKFTLIGATTRAGMLSNPLRD--RFGMQFRLEFYKDSELALILQKAALKLNKTCEEKAALEIAKRSRS-TPRIALRLLK  228 (338)
T ss_dssp             CCCCEEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHTTTT-CHHHHHHHHH
T ss_pred             CCCeEEEEeCCCccccCHHHHh--hcCEEeeCCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHCc-CHHHHHHHHH
Confidence            1148999999999999999999  999999999999999999999887765543 34457788887777 6889999998


Q ss_pred             HHHHHHHHhhcccccccHHHHHHHHhhcCC
Q 007255          506 EAGIVALREDISATAVRNRHFQTVKDSLKP  535 (611)
Q Consensus       506 ~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~  535 (611)
                      .+...+....  ...++..++..++.....
T Consensus       229 ~~~~~a~~~~--~~~i~~~~~~~~~~~~~~  256 (338)
T 3pfi_A          229 RVRDFADVND--EEIITEKRANEALNSLGV  256 (338)
T ss_dssp             HHHHHHHHTT--CSEECHHHHHHHHHHHTC
T ss_pred             HHHHHHHhhc--CCccCHHHHHHHHHHhCC
Confidence            8876665432  346888888888876543

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=99.80  E-value=2.3e-19  Score=182.38  Aligned_cols=240  Identities=19%  Similarity=0.232  Sum_probs=164.2

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhc-CCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc-ccccc
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRL-GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVGE  367 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~-~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~-~~~g~  367 (611)
                      ++++|++.+++.+...+..+.......... +...++++||+||||||||++|+++|..++.+++.++++++.. .|.|.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~   94 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGG
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCc
Confidence            358899999999988776432211100000 1134678999999999999999999999999999999998876 56654


Q ss_pred             h-HHHHHHHHHHH-----HhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--------CCCCeEEE
Q 007255          368 S-EALLRNTFQRA-----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--------QAKGILVL  433 (611)
Q Consensus       368 ~-~~~~~~~~~~a-----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~~~~~vI  433 (611)
                      . ...++.++..+     ....++||||||+|.+.......  ........+.+.|+..|++..        ...+++||
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~--~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~i  172 (310)
T 1ofh_A           95 EVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYS--GADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFI  172 (310)
T ss_dssp             STTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCC--SSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEE
T ss_pred             cHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCcccccc--ccchhHHHHHHHHHHHhcCCeEecccccccCCcEEEE
Confidence            3 34566665532     11236799999999997654321  111222345788888888531        34578888


Q ss_pred             Ee----cCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHH-----------h--cCCCC-CCcccHHHHHHhCC--
Q 007255          434 AA----TNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVH-----------T--RNMKV-GDDVDLRSIAEETE--  493 (611)
Q Consensus       434 ~~----tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~-----------~--~~~~~-~~~~~~~~la~~~~--  493 (611)
                      ++    ++.+..+++++++  ||+..+.|++|+.+++.+|++..           +  .+..+ .++..++.+++.+.  
T Consensus       173 ~~~~~~~~~~~~l~~~l~~--R~~~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~  250 (310)
T 1ofh_A          173 ASGAFQVARPSDLIPELQG--RLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRV  250 (310)
T ss_dssp             EEECCSSSCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHHHHHHH
T ss_pred             EcCCcccCCcccCCHHHHh--hCCceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHHHhcCCeeccCHHHHHHHHHHhhhh
Confidence            88    5678899999998  99988999999999999999831           1  11111 23445677777662  


Q ss_pred             -----CCCHHHHHHHHHHHHHHHHHhhcc----cccccHHHHHHHHhhc
Q 007255          494 -----LFTGAELEGLCREAGIVALREDIS----ATAVRNRHFQTVKDSL  533 (611)
Q Consensus       494 -----g~s~~~i~~~~~~a~~~a~~~~~~----~~~i~~~~~~~~l~~~  533 (611)
                           +.+.+++.+++..+...+..+...    ...|+.+++..++...
T Consensus       251 ~~~~~~g~~R~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~v~~~l~~~  299 (310)
T 1ofh_A          251 NEKTENIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADALGEV  299 (310)
T ss_dssp             HHHSCCCTTHHHHHHHHHHSHHHHHHGGGCTTCEEEECHHHHHHHTCSS
T ss_pred             cccccccCcHHHHHHHHHHHHhhhcCCccccCCEEEEeeHHHHHHHHhh
Confidence                 347889999998876554433221    1137888888877644

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=99.80  E-value=1.1e-20  Score=197.60  Aligned_cols=169  Identities=20%  Similarity=0.202  Sum_probs=82.3

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCC-CCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc-ccccc
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGI-SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVGE  367 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~-~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~-~~~g~  367 (611)
                      ++|+|++++|+.+..++..+..+...+..+.. .+++++||+||||||||++|+++|..++.+++.++++.+.+ .|+|.
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~~g~vG~   94 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcccceeec
Confidence            46899999999999888765544443333332 25688999999999999999999999999999999999988 59995


Q ss_pred             -hHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEe-cCCCcccchh
Q 007255          368 -SEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAA-TNRPHAIDAA  445 (611)
Q Consensus       368 -~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~-tn~~~~ld~a  445 (611)
                       .+..++.+|..+...    +++||++.+....      .....++++++|+..||++.....+  +++ ||+|+.+|++
T Consensus        95 d~e~~lr~lf~~a~~~----~~~De~d~~~~~~------~~~~e~rvl~~LL~~~dg~~~~~~v--~a~~TN~~~~ld~a  162 (444)
T 1g41_A           95 EVDSIIRDLTDSAMKL----VRQQEIAKNRARA------EDVAEERILDALLPPAKNQWGEVEN--HDSHSSTRQAFRKK  162 (444)
T ss_dssp             CTHHHHHHHHHHHHHH----HHHHHHHSCC--------------------------------------------------
T ss_pred             cHHHHHHHHHHHHHhc----chhhhhhhhhccc------hhhHHHHHHHHHHHHhhcccccccc--ccccccCHHHHHHH
Confidence             799999999998765    3589988764321      2234578999999999998766554  444 9999999999


Q ss_pred             ccCCCCccceeecCCCCHH-HHHHHH
Q 007255          446 LMRPGRFDLVLYVPPPDLE-ARHEIL  470 (611)
Q Consensus       446 l~r~gRf~~~i~~~~p~~~-~r~~il  470 (611)
                      |+||||||+.|+++.|+.. .|.+|+
T Consensus       163 L~rggr~D~~i~i~lP~~~~~~~ei~  188 (444)
T 1g41_A          163 LREGQLDDKEIEIDVSAGVSMGVEIM  188 (444)
T ss_dssp             --------------------------
T ss_pred             HHcCCCcceEEEEcCCCCccchhhhh
Confidence            9999999999999999998 788876

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=99.79  E-value=9.3e-20  Score=198.59  Aligned_cols=226  Identities=20%  Similarity=0.282  Sum_probs=148.0

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc---
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS---  362 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~---  362 (611)
                      ..-+++++|++++++.+.+.+......      ... ++.+++|+||||||||++|+++|..++.++..+++..+..   
T Consensus        77 ~~l~~di~G~~~vk~~i~~~~~l~~~~------~~~-~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~  149 (543)
T 3m6a_A           77 RLLDEEHHGLEKVKERILEYLAVQKLT------KSL-KGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESE  149 (543)
T ss_dssp             GTHHHHCSSCHHHHHHHHHHHHHHHHS------SSC-CSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC------
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHhc------ccC-CCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhh
Confidence            344677999999999998766531111      111 4567999999999999999999999999999998876543   


Q ss_pred             ------ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC----------
Q 007255          363 ------MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ----------  426 (611)
Q Consensus       363 ------~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~----------  426 (611)
                            .|.|...+.+...|..+....| |+||||+|.+...+.          ....+.|+..|+....          
T Consensus       150 ~~g~~~~~ig~~~~~~~~~~~~a~~~~~-vl~lDEid~l~~~~~----------~~~~~~LL~~ld~~~~~~~~~~~~~~  218 (543)
T 3m6a_A          150 IRGHRRTYVGAMPGRIIQGMKKAGKLNP-VFLLDEIDKMSSDFR----------GDPSSAMLEVLDPEQNSSFSDHYIEE  218 (543)
T ss_dssp             --------------CHHHHHHTTCSSSE-EEEEEESSSCC-------------------CCGGGTCTTTTTBCCCSSSCC
T ss_pred             hhhHHHHHhccCchHHHHHHHHhhccCC-EEEEhhhhhhhhhhc----------cCHHHHHHHHHhhhhcceeecccCCe
Confidence                  5667777777777877766666 999999999865431          1245667777764321          


Q ss_pred             ---CCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHh-----cCCCCC------CcccHHHHHHhC
Q 007255          427 ---AKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHT-----RNMKVG------DDVDLRSIAEET  492 (611)
Q Consensus       427 ---~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~-----~~~~~~------~~~~~~~la~~~  492 (611)
                         ..+++||+|||.++.++++|++  ||+ +|.|+.|+.+++..|++.++     +.....      ++..+..++...
T Consensus       219 ~~~~~~v~iI~ttN~~~~l~~aL~~--R~~-vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~~~~  295 (543)
T 3m6a_A          219 TFDLSKVLFIATANNLATIPGPLRD--RME-IINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDIIRYY  295 (543)
T ss_dssp             CCBCSSCEEEEECSSTTTSCHHHHH--HEE-EEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHHHHH
T ss_pred             eecccceEEEeccCccccCCHHHHh--hcc-eeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHHHhC
Confidence               1568999999999999999999  996 79999999999999999765     222221      233355655533


Q ss_pred             CC-CCHHHH----HHHHHHHHHHHHHhhcccccccHHHHHHHHhh
Q 007255          493 EL-FTGAEL----EGLCREAGIVALREDISATAVRNRHFQTVKDS  532 (611)
Q Consensus       493 ~g-~s~~~i----~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~  532 (611)
                      .+ ...+++    +.+|+.+...+.........|+..++..++..
T Consensus       296 ~~~~~vR~L~~~i~~~~~~aa~~~~~~~~~~~~It~~~l~~~Lg~  340 (543)
T 3m6a_A          296 TREAGVRSLERQLAAICRKAAKAIVAEERKRITVTEKNLQDFIGK  340 (543)
T ss_dssp             CCCSSSHHHHHHHHHHHHHHHHHHHTTCCSCCEECTTTTHHHHCS
T ss_pred             ChhhchhHHHHHHHHHHHHHHHHHHhcCCcceecCHHHHHHHhCC
Confidence            32 233444    44555544444443333446788888887743

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=99.78  E-value=2.9e-18  Score=170.96  Aligned_cols=224  Identities=18%  Similarity=0.184  Sum_probs=148.5

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc-cccccch
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY-SMYVGES  368 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~-~~~~g~~  368 (611)
                      ..++|.....+.+......   ....+...+..+++++||+||||||||++|+++|+.++.+++.+++++.. +...+..
T Consensus        33 ~~~i~~~~~~~~i~~~~~~---l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~  109 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGEL---LVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAK  109 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHH---HHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHH
T ss_pred             cCCCCccHHHHHHHHHHHH---HHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHH
Confidence            3456665554444432110   01122223456778999999999999999999999999999999876532 2112223


Q ss_pred             HHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-CCCCeEEEEecCCCcccch-hc
Q 007255          369 EALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-QAKGILVLAATNRPHAIDA-AL  446 (611)
Q Consensus       369 ~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-~~~~~~vI~~tn~~~~ld~-al  446 (611)
                      ...++.+|..+....+++|||||+|.+++.+...    ......+++.|...+++.. ...++++|+|||.++.+++ .+
T Consensus       110 ~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~----~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l  185 (272)
T 1d2n_A          110 CQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIG----PRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEM  185 (272)
T ss_dssp             HHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTT----TBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCC----hhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhh
Confidence            4577888988887788999999999998765322    1234667788888887654 3456889999999999988 55


Q ss_pred             cCCCCccceeecCCCCH-HHHHHHHHHHhcCCCCCCcccHHHHHHhCCCC----CHHHHHHHHHHHHHHHHHhhcccccc
Q 007255          447 MRPGRFDLVLYVPPPDL-EARHEILRVHTRNMKVGDDVDLRSIAEETELF----TGAELEGLCREAGIVALREDISATAV  521 (611)
Q Consensus       447 ~r~gRf~~~i~~~~p~~-~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~----s~~~i~~~~~~a~~~a~~~~~~~~~i  521 (611)
                      .+  ||+..+.+|.++. ++...++..   ... .++.++..+++.+.||    +.+++.+++..+...+       ...
T Consensus       186 ~~--rf~~~i~~p~l~~r~~i~~i~~~---~~~-~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~~-------~~~  252 (272)
T 1d2n_A          186 LN--AFSTTIHVPNIATGEQLLEALEL---LGN-FKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMD-------PEY  252 (272)
T ss_dssp             TT--TSSEEEECCCEEEHHHHHHHHHH---HTC-SCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTSC-------GGG
T ss_pred             hc--ccceEEcCCCccHHHHHHHHHHh---cCC-CCHHHHHHHHHHhcCCCccccHHHHHHHHHHHhhhc-------hHH
Confidence            55  9998998876655 444444432   222 2456688899988887    5666666666543322       223


Q ss_pred             cHHHHHHHHhhc
Q 007255          522 RNRHFQTVKDSL  533 (611)
Q Consensus       522 ~~~~~~~~l~~~  533 (611)
                      ...++...+...
T Consensus       253 ~~~~~~~~l~~~  264 (272)
T 1d2n_A          253 RVRKFLALLREE  264 (272)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHc
Confidence            445555555443

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=99.77  E-value=1.1e-17  Score=171.24  Aligned_cols=234  Identities=22%  Similarity=0.246  Sum_probs=165.5

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      +.+.+|++++|.+..++.+.+.+....       . ...++.++||+||||||||++|+++++.++.+++.++++.+.. 
T Consensus         6 ~~p~~~~~~ig~~~~~~~l~~~l~~~~-------~-~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~-   76 (324)
T 1hqc_A            6 LRPKTLDEYIGQERLKQKLRVYLEAAK-------A-RKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK-   76 (324)
T ss_dssp             CCCCSTTTCCSCHHHHHHHHHHHHHHH-------H-HCSCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCS-
T ss_pred             cCcccHHHhhCHHHHHHHHHHHHHHHH-------c-cCCCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCC-
Confidence            345579999999999999888776311       0 1134568999999999999999999999999999988876532 


Q ss_pred             cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC----------------CC
Q 007255          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE----------------QA  427 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~----------------~~  427 (611)
                           ...+...+.. ....+++|||||+|.+.              ......|+..++...                ..
T Consensus        77 -----~~~l~~~l~~-~~~~~~~l~lDEi~~l~--------------~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~  136 (324)
T 1hqc_A           77 -----PGDLAAILAN-SLEEGDILFIDEIHRLS--------------RQAEEHLYPAMEDFVMDIVIGQGPAARTIRLEL  136 (324)
T ss_dssp             -----HHHHHHHHTT-TCCTTCEEEETTTTSCC--------------HHHHHHHHHHHHHSEEEECCSSSSSCCCEEEEC
T ss_pred             -----hHHHHHHHHH-hccCCCEEEEECCcccc--------------cchHHHHHHHHHhhhhHHhccccccccccccCC
Confidence                 1222222221 01457799999999873              234455666665321                11


Q ss_pred             CCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHH
Q 007255          428 KGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCRE  506 (611)
Q Consensus       428 ~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~  506 (611)
                      .++.+|++||.+..+++++.+  ||+.++.++.|+.+++..+++..+...... ++..+..++..+.| +++++.+++..
T Consensus       137 ~~~~~i~~t~~~~~~~~~l~~--R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G-~~r~l~~~l~~  213 (324)
T 1hqc_A          137 PRFTLIGATTRPGLITAPLLS--RFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRG-TMRVAKRLFRR  213 (324)
T ss_dssp             CCCEEEEEESCCSSCSCSTTT--TCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCS-CHHHHHHHHHH
T ss_pred             CCEEEEEeCCCcccCCHHHHh--cccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccC-CHHHHHHHHHH
Confidence            357899999999999999998  998899999999999999999887765543 34457889999887 67888888887


Q ss_pred             HHHHHHHhhcccccccHHHHHHHHhhcCC---CCCHHHHHHHHHHhhc
Q 007255          507 AGIVALREDISATAVRNRHFQTVKDSLKP---ALTKEEIDSYSSFMKS  551 (611)
Q Consensus       507 a~~~a~~~~~~~~~i~~~~~~~~l~~~~~---~~~~~~~~~~~~~~~~  551 (611)
                      +...+...  ....++.+++..++.....   .....+.+.+....+.
T Consensus       214 ~~~~a~~~--~~~~i~~~~~~~~~~~~~~~~~~l~~~e~~~i~~~~~~  259 (324)
T 1hqc_A          214 VRDFAQVA--GEEVITRERALEALAALGLDELGLEKRDREILEVLILR  259 (324)
T ss_dssp             HTTTSTTT--SCSCCCHHHHHHHHHHHTCCTTCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHh--cCCCCCHHHHHHHHHHhcccccCCCHHHHHHHHHHHHH
Confidence            76554322  2346888888887765542   2344444444444433

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=99.77  E-value=1.1e-18  Score=181.59  Aligned_cols=224  Identities=24%  Similarity=0.247  Sum_probs=153.4

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHh--hcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc-cccc
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFS--RLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM-YVGE  367 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~--~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~-~~g~  367 (611)
                      .|+|++.+++.+...+...........  .-...++.++||+||||||||++|+++|..++.+|+.++++++... |.|.
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~   95 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGE   95 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhcccccccc
Confidence            368999999999888753221111000  0011256789999999999999999999999999999999998754 7776


Q ss_pred             h-HHHHHHHHHHH----HhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-----------------
Q 007255          368 S-EALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-----------------  425 (611)
Q Consensus       368 ~-~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------------  425 (611)
                      . ...+..+|..+    ....++||||||+|.+...+...+........++++.|+..|++..                 
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~~~~~~~  175 (363)
T 3hws_A           96 DVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFL  175 (363)
T ss_dssp             HHTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC----------------CC
T ss_pred             cHHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCccccccCCCceE
Confidence            5 45667777665    4456789999999999877654443333334568999999998431                 


Q ss_pred             --CCCCeEEEEecCCC----------------------------------------cc-----cchhccCCCCccceeec
Q 007255          426 --QAKGILVLAATNRP----------------------------------------HA-----IDAALMRPGRFDLVLYV  458 (611)
Q Consensus       426 --~~~~~~vI~~tn~~----------------------------------------~~-----ld~al~r~gRf~~~i~~  458 (611)
                        ...+++||+++|..                                        +.     ++|+|+.  ||+.++.|
T Consensus       176 ~i~tsn~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~--R~~~~~~~  253 (363)
T 3hws_A          176 QVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIG--RLPVVATL  253 (363)
T ss_dssp             CCCTTSSEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHT--TCCEEEEC
T ss_pred             EEECCCceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhc--ccCeeeec
Confidence              12234555555532                                        11     5677777  99999999


Q ss_pred             CCCCHHHHHHHHHH----Hh-------cCCCCC---CcccHHHHHHh--CCCCCHHHHHHHHHHHHHHHHHhhc
Q 007255          459 PPPDLEARHEILRV----HT-------RNMKVG---DDVDLRSIAEE--TELFTGAELEGLCREAGIVALREDI  516 (611)
Q Consensus       459 ~~p~~~~r~~il~~----~~-------~~~~~~---~~~~~~~la~~--~~g~s~~~i~~~~~~a~~~a~~~~~  516 (611)
                      ++|+.+++.+|+..    ..       ......   ++..++.|+..  ...+..+++++++..+...++.+..
T Consensus       254 ~pl~~~~~~~I~~~~~~~l~~~~~~~~~~~~~~l~~~~~a~~~L~~~~~~~~~gaR~L~~~ie~~~~~~l~~~~  327 (363)
T 3hws_A          254 NELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLP  327 (363)
T ss_dssp             CCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTTTTHHHHHHHHHHHHHHSTT
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHhhcCCccCchHHHHHHHHHHHHHHHhcc
Confidence            99999999999985    21       111111   23345667653  3455678899999988887776653

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.77  E-value=3.6e-17  Score=168.48  Aligned_cols=196  Identities=21%  Similarity=0.273  Sum_probs=147.2

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      ..+++++|++..++.+..++.....        .-.++.++||+||||||||++++++++.++.+++.+++..+..    
T Consensus        26 ~~~~~iiG~~~~~~~l~~~l~~~~~--------~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~~----   93 (338)
T 3pfi_A           26 SNFDGYIGQESIKKNLNVFIAAAKK--------RNECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEK----   93 (338)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHHHH--------TTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCCS----
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHh--------cCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhccc----
Confidence            5789999999999999998865321        1235578999999999999999999999999999999876531    


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC------------CCCCCcE
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS------------KTSVPHV  163 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~------------~~~~~~v  163 (611)
                        ...+...+..      ...+++|||||+|.+.+          ..+..|+..++.....            ....+++
T Consensus        94 --~~~~~~~~~~------~~~~~vl~lDEi~~l~~----------~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~  155 (338)
T 3pfi_A           94 --SGDLAAILTN------LSEGDILFIDEIHRLSP----------AIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKF  155 (338)
T ss_dssp             --HHHHHHHHHT------CCTTCEEEEETGGGCCH----------HHHHHHHHHHHTSCC---------CCCCCCCCCCC
T ss_pred             --hhHHHHHHHh------ccCCCEEEEechhhcCH----------HHHHHHHHHHHhccchhhcccCccccceecCCCCe
Confidence              2223333322      23578999999998853          5677888888765321            1112258


Q ss_pred             EEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHH
Q 007255          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATM  242 (611)
Q Consensus       164 ~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~  242 (611)
                      .+|++||....+++++++  ||+..+.+++|+.+++..+++.++...... .+..+..++..+.|. .+.+.+++..+..
T Consensus       156 ~~i~atn~~~~l~~~L~~--R~~~~i~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~l~~~~~G~-~r~l~~~l~~~~~  232 (338)
T 3pfi_A          156 TLIGATTRAGMLSNPLRD--RFGMQFRLEFYKDSELALILQKAALKLNKTCEEKAALEIAKRSRST-PRIALRLLKRVRD  232 (338)
T ss_dssp             EEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHTTTTC-HHHHHHHHHHHHH
T ss_pred             EEEEeCCCccccCHHHHh--hcCEEeeCCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHCcC-HHHHHHHHHHHHH
Confidence            999999999999999998  998899999999999999999888766543 223467777766654 4667777776654


Q ss_pred             HH
Q 007255          243 SA  244 (611)
Q Consensus       243 ~a  244 (611)
                      .+
T Consensus       233 ~a  234 (338)
T 3pfi_A          233 FA  234 (338)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.77  E-value=1.1e-17  Score=174.31  Aligned_cols=219  Identities=22%  Similarity=0.277  Sum_probs=153.3

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC--cEEEEcccccccccc-
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA--HLTVISPHSVHKAHV-   94 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~--~~~~v~~~~~~~~~~-   94 (611)
                      +++++|++..++.+..+....        ..+..++.++||+||||||||++++++++.++.  +++.+++..+...+. 
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~--------~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~  114 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMI--------REGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMS  114 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHH--------HTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGGGSCSSSC
T ss_pred             hhhccChHHHHHHHHHHHHHH--------HcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchhhhhcccc
Confidence            789999999999877665331        123445689999999999999999999999975  677777655332221 


Q ss_pred             ------------------------------------------------cchHHHHHHHHHHHHhhhh-cC----CCeEEE
Q 007255           95 ------------------------------------------------GESEKALREAFSQASSHAL-SG----KPSVVF  121 (611)
Q Consensus        95 ------------------------------------------------~~~~~~l~~~f~~~~~~~~-~~----~~~il~  121 (611)
                                                                      +.....++..+..+..... .+    .|+|||
T Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~  194 (368)
T 3uk6_A          115 KTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLF  194 (368)
T ss_dssp             HHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEE
T ss_pred             hhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEE
Confidence                                                            1223344444444433211 11    267999


Q ss_pred             EccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee-----------cCcccccHHhhccCCcceEEE
Q 007255          122 IDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST-----------NRVDAIDPALRRSGRFDAEVE  190 (611)
Q Consensus       122 IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt-----------n~~~~l~~~l~~~~Rf~~~i~  190 (611)
                      |||+|.+.+          ..++.|+..++...      ..++++++.           |.+..+++++++  ||. .+.
T Consensus       195 IDEi~~l~~----------~~~~~L~~~le~~~------~~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~s--R~~-~i~  255 (368)
T 3uk6_A          195 IDEVHMLDI----------ESFSFLNRALESDM------APVLIMATNRGITRIRGTSYQSPHGIPIDLLD--RLL-IVS  255 (368)
T ss_dssp             EESGGGSBH----------HHHHHHHHHTTCTT------CCEEEEEESCSEEECBTSSCEEETTCCHHHHT--TEE-EEE
T ss_pred             EhhccccCh----------HHHHHHHHHhhCcC------CCeeeeecccceeeeeccCCCCcccCCHHHHh--hcc-EEE
Confidence            999998853          56777888876532      235555554           346789999998  996 489


Q ss_pred             ccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHH
Q 007255          191 VTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHAR  269 (611)
Q Consensus       191 ~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~  269 (611)
                      |++|+.+++.+|++..+...... .+..++.++..+.+.+.+.+.++++.|...+..+..        ..++.+++..+.
T Consensus       256 ~~~~~~~e~~~il~~~~~~~~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~~~--------~~It~~~v~~a~  327 (368)
T 3uk6_A          256 TTPYSEKDTKQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKG--------TEVQVDDIKRVY  327 (368)
T ss_dssp             ECCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTTC--------SSBCHHHHHHHH
T ss_pred             ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCC--------CCCCHHHHHHHH
Confidence            99999999999999888664433 233478888888866788999999998877755422        247777777776


Q ss_pred             hc
Q 007255          270 SV  271 (611)
Q Consensus       270 ~~  271 (611)
                      ..
T Consensus       328 ~~  329 (368)
T 3uk6_A          328 SL  329 (368)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.76  E-value=4.5e-18  Score=180.35  Aligned_cols=212  Identities=22%  Similarity=0.275  Sum_probs=154.8

Q ss_pred             cCCCcccccccchhHHH---HHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchh
Q 007255          283 EIPKVTWEDIGGLRDLK---KKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE  359 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k---~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~  359 (611)
                      ...+.+|++++|++.+.   +.|...+..           +  ..+++||+||||||||++|+++|+.++.+++.+++..
T Consensus        19 r~rP~~l~~ivGq~~~~~~~~~L~~~i~~-----------~--~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~   85 (447)
T 3pvs_A           19 RMRPENLAQYIGQQHLLAAGKPLPRAIEA-----------G--HLHSMILWGPPGTGKTTLAEVIARYANADVERISAVT   85 (447)
T ss_dssp             HTCCCSTTTCCSCHHHHSTTSHHHHHHHH-----------T--CCCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTT
T ss_pred             HhCCCCHHHhCCcHHHHhchHHHHHHHHc-----------C--CCcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEecc
Confidence            34556899999999998   777777764           1  2257999999999999999999999999999988643


Q ss_pred             hccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEe
Q 007255          360 LYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAA  435 (611)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~  435 (611)
                      .       ....++.++..+..    ..+.||||||+|.+..              ...+.|+..++.    +.+++|++
T Consensus        86 ~-------~~~~ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~--------------~~q~~LL~~le~----~~v~lI~a  140 (447)
T 3pvs_A           86 S-------GVKEIREAIERARQNRNAGRRTILFVDEVHRFNK--------------SQQDAFLPHIED----GTITFIGA  140 (447)
T ss_dssp             C-------CHHHHHHHHHHHHHHHHTTCCEEEEEETTTCC--------------------CCHHHHHT----TSCEEEEE
T ss_pred             C-------CHHHHHHHHHHHHHhhhcCCCcEEEEeChhhhCH--------------HHHHHHHHHHhc----CceEEEec
Confidence            2       23345555555543    4678999999998832              234567777763    55777777


Q ss_pred             c--CCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCC-------C-CCcccHHHHHHhCCCCCHHHHHHHHH
Q 007255          436 T--NRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMK-------V-GDDVDLRSIAEETELFTGAELEGLCR  505 (611)
Q Consensus       436 t--n~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~-------~-~~~~~~~~la~~~~g~s~~~i~~~~~  505 (611)
                      |  |....+++++++  |+. ++.++.|+.+++..+++..+....       + .++..++.++..+.| +.+++.+++.
T Consensus       141 tt~n~~~~l~~aL~s--R~~-v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~G-d~R~lln~Le  216 (447)
T 3pvs_A          141 TTENPSFELNSALLS--RAR-VYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNG-DARRALNTLE  216 (447)
T ss_dssp             ESSCGGGSSCHHHHT--TEE-EEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCS-CHHHHHHHHH
T ss_pred             CCCCcccccCHHHhC--cee-EEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCC-CHHHHHHHHH
Confidence            7  444579999999  887 788999999999999998776521       1 134457888888877 7888888888


Q ss_pred             HHHHHHHHhhcccccccHHHHHHHHhhcCCC
Q 007255          506 EAGIVALREDISATAVRNRHFQTVKDSLKPA  536 (611)
Q Consensus       506 ~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~~  536 (611)
                      .+...+.........|+.+++..++......
T Consensus       217 ~a~~~a~~~~~~~~~It~e~v~~~l~~~~~~  247 (447)
T 3pvs_A          217 MMADMAEVDDSGKRVLKPELLTEIAGERSAR  247 (447)
T ss_dssp             HHHHHSCBCTTSCEECCHHHHHHHHTCCCCC
T ss_pred             HHHHhcccccCCCCccCHHHHHHHHhhhhhc
Confidence            8776653221123579999999998765443

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=99.76  E-value=8.7e-18  Score=178.55  Aligned_cols=221  Identities=18%  Similarity=0.229  Sum_probs=154.7

Q ss_pred             CCccccccc-ch--hHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeec
Q 007255          285 PKVTWEDIG-GL--RDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLS  356 (611)
Q Consensus       285 ~~~~~~~i~-g~--~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~  356 (611)
                      +..+|++++ |.  ......+......+          + . +++++||||||||||++|+++|+++     +.+++.++
T Consensus       100 ~~~tfd~fv~g~~n~~a~~~~~~~a~~~----------~-~-~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~  167 (440)
T 2z4s_A          100 PDYTFENFVVGPGNSFAYHAALEVAKHP----------G-R-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT  167 (440)
T ss_dssp             TTCSGGGCCCCTTTHHHHHHHHHHHHST----------T-S-SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEE
T ss_pred             CCCChhhcCCCCchHHHHHHHHHHHhCC----------C-C-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee
Confidence            455788876 53  33444444444421          1 2 5689999999999999999999998     88899999


Q ss_pred             chhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEec
Q 007255          357 GAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAAT  436 (611)
Q Consensus       357 ~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~t  436 (611)
                      +.++...+.+.........|.......++||||||+|.+.++            ......|+..++.+...+..+||++.
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~IDEi~~l~~~------------~~~q~~l~~~l~~l~~~~~~iIitt~  235 (440)
T 2z4s_A          168 SEKFLNDLVDSMKEGKLNEFREKYRKKVDILLIDDVQFLIGK------------TGVQTELFHTFNELHDSGKQIVICSD  235 (440)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHTTTCSEEEEECGGGGSSC------------HHHHHHHHHHHHHHHTTTCEEEEEES
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHhcCCCCEEEEeCcccccCC------------hHHHHHHHHHHHHHHHCCCeEEEEEC
Confidence            888755443322211112233322226889999999998532            12334455554433345566777666


Q ss_pred             CCCcc---cchhccCCCCcc--ceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 007255          437 NRPHA---IDAALMRPGRFD--LVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       437 n~~~~---ld~al~r~gRf~--~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~  510 (611)
                      +.|..   +++++++  ||.  ..+.+++|+.++|..|++..+....+. ++..+..++..+.| +.+++.+++..+...
T Consensus       236 ~~~~~l~~l~~~L~s--R~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~e~l~~la~~~~g-n~R~l~~~L~~~~~~  312 (440)
T 2z4s_A          236 REPQKLSEFQDRLVS--RFQMGLVAKLEPPDEETRKSIARKMLEIEHGELPEEVLNFVAENVDD-NLRRLRGAIIKLLVY  312 (440)
T ss_dssp             SCGGGCSSCCHHHHH--HHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHCCS-CHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHh--hccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHHHH
Confidence            66665   7889998  886  789999999999999999776543332 33447889999987 899999999999887


Q ss_pred             HHHhhcccccccHHHHHHHHhhcCC
Q 007255          511 ALREDISATAVRNRHFQTVKDSLKP  535 (611)
Q Consensus       511 a~~~~~~~~~i~~~~~~~~l~~~~~  535 (611)
                      +...   ..+|+.+++..++....+
T Consensus       313 a~~~---~~~It~~~~~~~l~~~~~  334 (440)
T 2z4s_A          313 KETT---GKEVDLKEAILLLKDFIK  334 (440)
T ss_dssp             HHHS---SSCCCHHHHHHHTSTTTC
T ss_pred             HHHh---CCCCCHHHHHHHHHHHhh
Confidence            7644   356999999999987653

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=99.75  E-value=2.8e-17  Score=166.99  Aligned_cols=249  Identities=20%  Similarity=0.250  Sum_probs=160.1

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhc-CCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc-ccccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKL-GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-AHVGE   96 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~-g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~-~~~~~   96 (611)
                      +.++|++++++.|...+..++......... +...+.++||+||||||||++++++++.++.+++.++++.+.. .+.+.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~   94 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGG
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCc
Confidence            458999999999998886643322211110 1135689999999999999999999999999999999988764 33332


Q ss_pred             -hHHHHHHHHHHHHhhhh-cCCCeEEEEccccccCCCCCCC--chhhHHHHHHHHHHHhcCCCC----CCCCCcEEEEEe
Q 007255           97 -SEKALREAFSQASSHAL-SGKPSVVFIDEIDALCPRRDHR--REQDVRIASQLFTLMDSNKPS----KTSVPHVVVVAS  168 (611)
Q Consensus        97 -~~~~l~~~f~~~~~~~~-~~~~~il~IDeid~l~~~~~~~--~~~~~~~~~~ll~~l~~~~~~----~~~~~~v~ii~t  168 (611)
                       ....+..++..+..... ...++||||||+|.+.+.....  ......++..|+..++.....    .....++++|++
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~i~~  174 (310)
T 1ofh_A           95 EVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIAS  174 (310)
T ss_dssp             STTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEE
T ss_pred             cHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEecccccccCCcEEEEEc
Confidence             23345555543210000 0126799999999998765322  122233577888888863110    001235778888


Q ss_pred             e----cCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhh-----------cCCCC--C-CcccHHHHHHhcc----
Q 007255          169 T----NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYT-----------KKVPL--D-ANVDLEAIATSCN----  226 (611)
Q Consensus       169 t----n~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~-----------~~~~~--~-~~~~~~~la~~~~----  226 (611)
                      +    +.+..+++++.+  ||...+.|++|+.+++.+|++...           .....  . .+..++.++..+.    
T Consensus       175 ~~~~~~~~~~l~~~l~~--R~~~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~  252 (310)
T 1ofh_A          175 GAFQVARPSDLIPELQG--RLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNE  252 (310)
T ss_dssp             ECCSSSCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHHHHHHHHH
T ss_pred             CCcccCCcccCCHHHHh--hCCceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHHHhcCCeeccCHHHHHHHHHHhhhhcc
Confidence            4    567789999998  999889999999999999998421           11111  1 2223666666552    


Q ss_pred             ---CCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhc
Q 007255          227 ---GYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (611)
Q Consensus       227 ---g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~  271 (611)
                         +.+.+.+.++++.+...+......  .......++.+++..+...
T Consensus       253 ~~~~g~~R~l~~~l~~~~~~~~~~~~~--~~~~~~~i~~~~v~~~l~~  298 (310)
T 1ofh_A          253 KTENIGARRLHTVMERLMDKISFSASD--MNGQTVNIDAAYVADALGE  298 (310)
T ss_dssp             HSCCCTTHHHHHHHHHHSHHHHHHGGG--CTTCEEEECHHHHHHHTCS
T ss_pred             cccccCcHHHHHHHHHHHHhhhcCCcc--ccCCEEEEeeHHHHHHHHh
Confidence               456788888888876554322211  1112234777777776554

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=99.74  E-value=1.9e-17  Score=188.85  Aligned_cols=223  Identities=20%  Similarity=0.218  Sum_probs=161.5

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEee
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSL  355 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~  355 (611)
                      +..|++++|.+...+.+.+.+..             ..+.++||+||||||||++|+++|..+          ++.++.+
T Consensus       182 ~~~~d~~iGr~~~i~~l~~~l~~-------------~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~  248 (758)
T 1r6b_X          182 VGGIDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL  248 (758)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEEC
T ss_pred             cCCCCCccCCHHHHHHHHHHHhc-------------cCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEE
Confidence            45789999999988888887653             345689999999999999999999987          6778888


Q ss_pred             cchhhc--cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEE
Q 007255          356 SGAELY--SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVL  433 (611)
Q Consensus       356 ~~~~~~--~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI  433 (611)
                      +.+.+.  .++.|..+..++.+++.+....++||||||+|.++++++...+     .....+.    +..+-..+.+.+|
T Consensus       249 ~~~~l~~~~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~-----~~~~~~~----L~~~l~~~~~~~I  319 (758)
T 1r6b_X          249 DIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGG-----QVDAANL----IKPLLSSGKIRVI  319 (758)
T ss_dssp             CCC---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSC-----HHHHHHH----HSSCSSSCCCEEE
T ss_pred             cHHHHhccccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcc-----hHHHHHH----HHHHHhCCCeEEE
Confidence            888776  4688999999999999998878899999999999876432111     1222333    3333456788999


Q ss_pred             EecCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCC----C-CCcccHHHHHHhCC-----CCCHH
Q 007255          434 AATNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMK----V-GDDVDLRSIAEETE-----LFTGA  498 (611)
Q Consensus       434 ~~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~----~-~~~~~~~~la~~~~-----g~s~~  498 (611)
                      ++||.++     .+|+++.|  ||+ .+.|+.|+.++|.+||+.....+.    + ..+..+..++..+.     .+.+.
T Consensus       320 ~at~~~~~~~~~~~d~aL~~--Rf~-~i~v~~p~~~e~~~il~~l~~~~~~~~~v~~~~~al~~~~~~s~~~i~~~~lp~  396 (758)
T 1r6b_X          320 GSTTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPD  396 (758)
T ss_dssp             EEECHHHHHCCCCCTTSSGG--GEE-EEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTH
T ss_pred             EEeCchHHhhhhhcCHHHHh--Cce-EEEcCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhcccccCch
Confidence            9999764     57899999  998 799999999999999997664422    1 12333555555443     35566


Q ss_pred             HHHHHHHHHHHHHHHhh--cccccccHHHHHHHHhhc
Q 007255          499 ELEGLCREAGIVALRED--ISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       499 ~i~~~~~~a~~~a~~~~--~~~~~i~~~~~~~~l~~~  533 (611)
                      .+..++.+|...+....  .....++.+++..++...
T Consensus       397 ~~i~lld~a~~~~~~~~~~~~~~~v~~~di~~~~~~~  433 (758)
T 1r6b_X          397 KAIDVIDEAGARARLMPVSKRKKTVNVADIESVVARI  433 (758)
T ss_dssp             HHHHHHHHHHHHHHHSSSCCCCCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccccccCCccCHHHHHHHHHHh
Confidence            77788887765544321  123457777777777654

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=99.74  E-value=1.7e-17  Score=169.94  Aligned_cols=203  Identities=17%  Similarity=0.140  Sum_probs=141.5

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      ..+.+.+|++++|++.+++.+.+++..            ...++.+|++||||||||++|+++|++++.+++.+++++..
T Consensus        18 ~k~rP~~~~~ivg~~~~~~~l~~~l~~------------~~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~~   85 (324)
T 3u61_B           18 QKYRPSTIDECILPAFDKETFKSITSK------------GKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCK   85 (324)
T ss_dssp             HHSCCCSTTTSCCCHHHHHHHHHHHHT------------TCCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTTCC
T ss_pred             HhhCCCCHHHHhCcHHHHHHHHHHHHc------------CCCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcccccC
Confidence            345567899999999999999998872            24456788899999999999999999999999999987632


Q ss_pred             cccccchHHHHHHHHHHHHhc-----CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEec
Q 007255          362 SMYVGESEALLRNTFQRARLA-----APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAAT  436 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~-----~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~t  436 (611)
                             ...++..+......     .+.|+||||+|.+.+             ....+.|+..++.  ...++.+|++|
T Consensus        86 -------~~~i~~~~~~~~~~~~~~~~~~vliiDEi~~l~~-------------~~~~~~L~~~le~--~~~~~~iI~~~  143 (324)
T 3u61_B           86 -------IDFVRGPLTNFASAASFDGRQKVIVIDEFDRSGL-------------AESQRHLRSFMEA--YSSNCSIIITA  143 (324)
T ss_dssp             -------HHHHHTHHHHHHHBCCCSSCEEEEEEESCCCGGG-------------HHHHHHHHHHHHH--HGGGCEEEEEE
T ss_pred             -------HHHHHHHHHHHHhhcccCCCCeEEEEECCcccCc-------------HHHHHHHHHHHHh--CCCCcEEEEEe
Confidence                   33444444443332     467999999998831             3456777777773  44678889999


Q ss_pred             CCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHh-------cCCCCC-Cc-ccHHHHHHhCCCCCHHHHHHHHHHH
Q 007255          437 NRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHT-------RNMKVG-DD-VDLRSIAEETELFTGAELEGLCREA  507 (611)
Q Consensus       437 n~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~-------~~~~~~-~~-~~~~~la~~~~g~s~~~i~~~~~~a  507 (611)
                      |.+..+++++.+  ||. .+.|+.|+.++|..|++...       ....+. ++ ..++.+++.+.| +.+++.+.++.+
T Consensus       144 n~~~~l~~~l~s--R~~-~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~g-d~R~a~~~L~~~  219 (324)
T 3u61_B          144 NNIDGIIKPLQS--RCR-VITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFP-DFRKTIGELDSY  219 (324)
T ss_dssp             SSGGGSCTTHHH--HSE-EEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCS-CTTHHHHHHHHH
T ss_pred             CCccccCHHHHh--hCc-EEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            999999999999  996 79999999999877665332       211222 23 557888888776 344455555544


Q ss_pred             HHHHHHhhcccccccHHHHHHHH
Q 007255          508 GIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       508 ~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      .        ....|+.+++..++
T Consensus       220 ~--------~~~~i~~~~v~~~~  234 (324)
T 3u61_B          220 S--------SKGVLDAGILSLVT  234 (324)
T ss_dssp             G--------GGTCBCC-------
T ss_pred             h--------ccCCCCHHHHHHHh
Confidence            3        12346665555544

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.74  E-value=9.4e-17  Score=154.38  Aligned_cols=202  Identities=20%  Similarity=0.211  Sum_probs=146.8

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecch
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGA  358 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~~  358 (611)
                      .++..|++++|.+...+.+.+.+..             ....+++|+||||||||++|+++++.+     ...++.++++
T Consensus        11 ~~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~   77 (226)
T 2chg_A           11 YRPRTLDEVVGQDEVIQRLKGYVER-------------KNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNAS   77 (226)
T ss_dssp             TSCSSGGGCCSCHHHHHHHHHHHHT-------------TCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETT
T ss_pred             cCCCCHHHHcCcHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccc
Confidence            4566789999999999999988763             122359999999999999999999986     3456777665


Q ss_pred             hhccccccchHHHHHHHHHHHH------hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEE
Q 007255          359 ELYSMYVGESEALLRNTFQRAR------LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILV  432 (611)
Q Consensus       359 ~~~~~~~g~~~~~~~~~~~~a~------~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  432 (611)
                      +...      ...+...+....      ...+.+|+|||+|.+.              ....+.|+..++.  ...++.+
T Consensus        78 ~~~~------~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~--------------~~~~~~l~~~l~~--~~~~~~~  135 (226)
T 2chg_A           78 DERG------IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALT--------------ADAQAALRRTMEM--YSKSCRF  135 (226)
T ss_dssp             CTTC------HHHHHHHHHHHHTSCCSTTCSCEEEEEETGGGSC--------------HHHHHHHHHHHHH--TTTTEEE
T ss_pred             cccC------hHHHHHHHHHHhcccCCCccCceEEEEeChhhcC--------------HHHHHHHHHHHHh--cCCCCeE
Confidence            4322      112222222222      2457899999999873              2335666667763  4567888


Q ss_pred             EEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 007255          433 LAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVA  511 (611)
Q Consensus       433 I~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a  511 (611)
                      |++||.++.+++++.+  ||. .+.+++|+.+++.++++..+...... ++..+..+++.+.| +.+.+.+++..+...+
T Consensus       136 i~~~~~~~~~~~~l~~--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~l~~~l~~~~~~~  211 (226)
T 2chg_A          136 ILSCNYVSRIIEPIQS--RCA-VFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGG-DFRKAINALQGAAAIG  211 (226)
T ss_dssp             EEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTT-CHHHHHHHHHHHHHTC
T ss_pred             EEEeCChhhcCHHHHH--hCc-eeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHhcC
Confidence            8999999999999998  898 89999999999999999776543332 34457788888877 6777777777665443


Q ss_pred             HHhhcccccccHHHHHHHHh
Q 007255          512 LREDISATAVRNRHFQTVKD  531 (611)
Q Consensus       512 ~~~~~~~~~i~~~~~~~~l~  531 (611)
                             ..|+.+++..++.
T Consensus       212 -------~~I~~~~v~~~~~  224 (226)
T 2chg_A          212 -------EVVDADTIYQITA  224 (226)
T ss_dssp             -------SCBCHHHHHHHHH
T ss_pred             -------ceecHHHHHHHhc
Confidence                   4688888888764

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.74  E-value=3.8e-18  Score=182.92  Aligned_cols=205  Identities=21%  Similarity=0.271  Sum_probs=140.7

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEe
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFS  354 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~  354 (611)
                      .+..+++++|.+...+.+.+.+..             ...+++||+||||||||++|+++|..+          +.+++.
T Consensus       175 r~~~ld~iiGr~~~i~~l~~~l~r-------------~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~  241 (468)
T 3pxg_A          175 KEDSLDPVIGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMT  241 (468)
T ss_dssp             TSSCSCCCCCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEEC
T ss_pred             hcCCCCCccCcHHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE
Confidence            445788999999999998888763             334679999999999999999999997          788999


Q ss_pred             ecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEE
Q 007255          355 LSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLA  434 (611)
Q Consensus       355 ~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~  434 (611)
                      ++++   .+|.|+.+..++.+|..+....|.|||||      +.            ....+.|+..|    ..+.+.+|+
T Consensus       242 l~~~---~~~~g~~e~~~~~~~~~~~~~~~~iLfiD------~~------------~~a~~~L~~~L----~~g~v~vI~  296 (468)
T 3pxg_A          242 LDMG---TKYRGEFEDRLKKVMDEIRQAGNIILFID------AA------------IDASNILKPSL----ARGELQCIG  296 (468)
T ss_dssp             C-------------CTTHHHHHHHHHTCCCCEEEEC------C--------------------CCCT----TSSSCEEEE
T ss_pred             eeCC---ccccchHHHHHHHHHHHHHhcCCeEEEEe------Cc------------hhHHHHHHHhh----cCCCEEEEe
Confidence            9887   67888888889999999998889999999      10            12334444444    356799999


Q ss_pred             ecCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-----CcccHHHHHHhCCC-----CCHHH
Q 007255          435 ATNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-----DDVDLRSIAEETEL-----FTGAE  499 (611)
Q Consensus       435 ~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-----~~~~~~~la~~~~g-----~s~~~  499 (611)
                      +||.++     .+|+++.|  ||+ .|.|+.|+.+++..|++.+...+...     .+..+..++..+.+     +.+..
T Consensus       297 at~~~e~~~~~~~~~al~~--Rf~-~i~v~~p~~e~~~~iL~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~  373 (468)
T 3pxg_A          297 ATTLDEYRKYIEKDAALER--RFQ-PIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDK  373 (468)
T ss_dssp             ECCTTTTHHHHTTCSHHHH--SEE-EEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHH
T ss_pred             cCCHHHHHHHhhcCHHHHH--hCc-cceeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCCcH
Confidence            999987     68999999  998 69999999999999999887664332     22335555555443     33456


Q ss_pred             HHHHHHHHHHHHHHhhcccccccHHHHHHHHh
Q 007255          500 LEGLCREAGIVALREDISATAVRNRHFQTVKD  531 (611)
Q Consensus       500 i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~  531 (611)
                      +..++.+|...+..+. ...|-...++...+.
T Consensus       374 ai~ll~~a~~~~~~~~-~~~p~~i~~l~~~i~  404 (468)
T 3pxg_A          374 AIDLIDEAGSKVRLRS-FTTPPNLKELEQKLD  404 (468)
T ss_dssp             HHHHHHHHHHHHHHHT-TSCCSSTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcc-CCCchHHHHHHHHHH
Confidence            7777777765554432 223333344444443

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=99.73  E-value=3.5e-17  Score=167.48  Aligned_cols=197  Identities=20%  Similarity=0.273  Sum_probs=137.6

Q ss_pred             CCccccccc-c--hhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecch
Q 007255          285 PKVTWEDIG-G--LRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGA  358 (611)
Q Consensus       285 ~~~~~~~i~-g--~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~  358 (611)
                      +..+|++++ |  .......+...+..+           ...+++++|+||||||||++|+++++.+   +.+++.+++.
T Consensus         6 ~~~~f~~fv~g~~~~~a~~~~~~~~~~~-----------~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~   74 (324)
T 1l8q_A            6 PKYTLENFIVGEGNRLAYEVVKEALENL-----------GSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSAD   74 (324)
T ss_dssp             TTCCSSSCCCCTTTHHHHHHHHHHHHTT-----------TTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CCCCcccCCCCCcHHHHHHHHHHHHhCc-----------CCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHH
Confidence            456788876 4  344455555555531           1245689999999999999999999998   8999999998


Q ss_pred             hhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCC
Q 007255          359 ELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR  438 (611)
Q Consensus       359 ~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~  438 (611)
                      ++...+.+.........|.... ..+++|||||+|.+.++            ......++..++.....+..+|+++++.
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~-~~~~vL~iDEi~~l~~~------------~~~~~~l~~~l~~~~~~~~~iii~~~~~  141 (324)
T 1l8q_A           75 DFAQAMVEHLKKGTINEFRNMY-KSVDLLLLDDVQFLSGK------------ERTQIEFFHIFNTLYLLEKQIILASDRH  141 (324)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHH-HTCSEEEEECGGGGTTC------------HHHHHHHHHHHHHHHHTTCEEEEEESSC
T ss_pred             HHHHHHHHHHHcCcHHHHHHHh-cCCCEEEEcCcccccCC------------hHHHHHHHHHHHHHHHCCCeEEEEecCC
Confidence            8866554433222222232222 34789999999998532            1223344444443334556777777777


Q ss_pred             Cc---ccchhccCCCCcc--ceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 007255          439 PH---AIDAALMRPGRFD--LVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       439 ~~---~ld~al~r~gRf~--~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~  510 (611)
                      |.   .+++++.+  ||.  ..+.+++ +.+++..|++..+...+.. ++..++.++..+ | +.+++.+++..+...
T Consensus       142 ~~~l~~l~~~L~s--R~~~~~~i~l~~-~~~e~~~il~~~~~~~~~~l~~~~l~~l~~~~-g-~~r~l~~~l~~~~~~  214 (324)
T 1l8q_A          142 PQKLDGVSDRLVS--RFEGGILVEIEL-DNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-K-NVREIEGKIKLIKLK  214 (324)
T ss_dssp             GGGCTTSCHHHHH--HHHTSEEEECCC-CHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-S-SHHHHHHHHHHHHHH
T ss_pred             hHHHHHhhhHhhh--cccCceEEEeCC-CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhC-C-CHHHHHHHHHHHHHc
Confidence            77   57899998  886  6799999 9999999999887654443 344578899998 6 788888888877655

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=99.73  E-value=6.7e-17  Score=161.08  Aligned_cols=194  Identities=19%  Similarity=0.239  Sum_probs=133.2

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccc-cccch
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA-HVGES   97 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~-~~~~~   97 (611)
                      ..++|.....+.+.......   .......+..++.++||+||||||||++|+++|+.++.+++.+++.+.... ..+..
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l---~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~  109 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELL---VQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAK  109 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHH---HHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHH
T ss_pred             cCCCCccHHHHHHHHHHHHH---HHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHH
Confidence            56888888877776632111   122233345677899999999999999999999999999999987652211 11122


Q ss_pred             HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccH
Q 007255           98 EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDP  177 (611)
Q Consensus        98 ~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~  177 (611)
                      ...++.+|..+..    ..+++|||||+|.++............++..|...++....   ...++++|+|||.++.+++
T Consensus       110 ~~~~~~~~~~~~~----~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~---~~~~~~ii~ttn~~~~l~~  182 (272)
T 1d2n_A          110 CQAMKKIFDDAYK----SQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPP---QGRKLLIIGTTSRKDVLQE  182 (272)
T ss_dssp             HHHHHHHHHHHHT----SSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCS---TTCEEEEEEEESCHHHHHH
T ss_pred             HHHHHHHHHHHHh----cCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccC---CCCCEEEEEecCChhhcch
Confidence            2455666766542    34789999999999765543334455677777777765332   2336889999999988887


Q ss_pred             -HhhccCCcceEEEccCCCH-HHHHHHHHHhhcCCCCCCcccHHHHHHhccCC
Q 007255          178 -ALRRSGRFDAEVEVTVPTA-EERFEILKLYTKKVPLDANVDLEAIATSCNGY  228 (611)
Q Consensus       178 -~l~~~~Rf~~~i~~~~p~~-~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~  228 (611)
                       .+.+  ||...+.+|+++. ++...++...   ..+ .+..+..++..+.|+
T Consensus       183 ~~l~~--rf~~~i~~p~l~~r~~i~~i~~~~---~~~-~~~~~~~l~~~~~g~  229 (272)
T 1d2n_A          183 MEMLN--AFSTTIHVPNIATGEQLLEALELL---GNF-KDKERTTIAQQVKGK  229 (272)
T ss_dssp             TTCTT--TSSEEEECCCEEEHHHHHHHHHHH---TCS-CHHHHHHHHHHHTTS
T ss_pred             hhhhc--ccceEEcCCCccHHHHHHHHHHhc---CCC-CHHHHHHHHHHhcCC
Confidence             5665  9988899987766 5555555542   222 344688899998887

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=99.73  E-value=1.8e-17  Score=172.31  Aligned_cols=243  Identities=18%  Similarity=0.259  Sum_probs=156.6

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHHh-cCC-CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccc-cccc
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQK-LGL-KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA-HVGE   96 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~-~g~-~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~-~~~~   96 (611)
                      .|+|++.+++.+...+...+........ .+. .++.++||+||||||||++|+++|+.++.+++.++++.+... +.|.
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~   95 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGE   95 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhcccccccc
Confidence            3699999999999988654322111000 011 256899999999999999999999999999999999887643 4554


Q ss_pred             h-HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCc----hhhHHHHHHHHHHHhcCCC-------C--------
Q 007255           97 S-EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR----EQDVRIASQLFTLMDSNKP-------S--------  156 (611)
Q Consensus        97 ~-~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~----~~~~~~~~~ll~~l~~~~~-------~--------  156 (611)
                      . ...+..+|..+........++||||||+|.+.+.++...    .....++..|+..|++...       .        
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~~~~~~~  175 (363)
T 3hws_A           96 DVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFL  175 (363)
T ss_dssp             HHTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC----------------CC
T ss_pred             cHHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCccccccCCCceE
Confidence            3 345566665542211122378999999999987654321    1223488999999993210       0        


Q ss_pred             CCCCCcEEEEEeecCc----------cc-----------------------------------ccHHhhccCCcceEEEc
Q 007255          157 KTSVPHVVVVASTNRV----------DA-----------------------------------IDPALRRSGRFDAEVEV  191 (611)
Q Consensus       157 ~~~~~~v~ii~ttn~~----------~~-----------------------------------l~~~l~~~~Rf~~~i~~  191 (611)
                      .....++++|++++..          ..                                   +.|+|.+  ||+..+.|
T Consensus       176 ~i~tsn~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~--R~~~~~~~  253 (363)
T 3hws_A          176 QVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIG--RLPVVATL  253 (363)
T ss_dssp             CCCTTSSEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHT--TCCEEEEC
T ss_pred             EEECCCceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhc--ccCeeeec
Confidence            0112345666666642          11                                   6788887  99999999


Q ss_pred             cCCCHHHHHHHHHH----hhc-------CCCCC---CcccHHHHHHh--ccCCccccHHHHHHHHHHHHhhhcccccccc
Q 007255          192 TVPTAEERFEILKL----YTK-------KVPLD---ANVDLEAIATS--CNGYVGADLEALCREATMSAVKRSSDANECA  255 (611)
Q Consensus       192 ~~p~~~~r~~Il~~----~~~-------~~~~~---~~~~~~~la~~--~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~  255 (611)
                      ++|+.+++.+|+..    +..       .....   .+.-++.++..  ...+..+.|++++..++...+.+..... ..
T Consensus       254 ~pl~~~~~~~I~~~~~~~l~~~~~~~~~~~~~~l~~~~~a~~~L~~~~~~~~~gaR~L~~~ie~~~~~~l~~~~~~~-~~  332 (363)
T 3hws_A          254 NELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSME-DV  332 (363)
T ss_dssp             CCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTTTTHHHHHHHHHHHHHHSTTTCC-CS
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHhhcCCccCchHHHHHHHHHHHHHHHhccccc-CC
Confidence            99999999999985    221       11211   12225666653  2345579999999999988877654321 11


Q ss_pred             cccchhHHHH
Q 007255          256 GVLSVTMEDW  265 (611)
Q Consensus       256 ~~~~v~~ed~  265 (611)
                      ....++.+++
T Consensus       333 ~~~~I~~~~v  342 (363)
T 3hws_A          333 EKVVIDESVI  342 (363)
T ss_dssp             EEEECHHHHT
T ss_pred             ceeEEcHHHH
Confidence            2334555443

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=99.72  E-value=1.4e-17  Score=191.76  Aligned_cols=203  Identities=23%  Similarity=0.247  Sum_probs=138.6

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEee
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSL  355 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~  355 (611)
                      +..+++++|.+...+.+.+.+..             ..+++++|+||||||||++|+++|..+          +.+++.+
T Consensus       166 ~~~ld~viGr~~~i~~l~~~l~~-------------~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l  232 (854)
T 1qvr_A          166 EGKLDPVIGRDEEIRRVIQILLR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSL  232 (854)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHHC-------------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEE
T ss_pred             cCCCcccCCcHHHHHHHHHHHhc-------------CCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEe
Confidence            45788999999888888887653             345689999999999999999999998          8899999


Q ss_pred             cchhhc--cccccchHHHHHHHHHHHHhc-CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEE
Q 007255          356 SGAELY--SMYVGESEALLRNTFQRARLA-APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILV  432 (611)
Q Consensus       356 ~~~~~~--~~~~g~~~~~~~~~~~~a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  432 (611)
                      +++.+.  .+|.|+.+..++.++..+... .|+||||||+|.+.+.+...+      ...+.+.|...++    .+.+.+
T Consensus       233 ~~~~l~~g~~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g------~~~~~~~L~~~l~----~~~i~~  302 (854)
T 1qvr_A          233 QMGSLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEG------AVDAGNMLKPALA----RGELRL  302 (854)
T ss_dssp             CC-----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------------HHHHH----TTCCCE
T ss_pred             ehHHhhccCccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccc------hHHHHHHHHHHHh----CCCeEE
Confidence            999887  578899999999999998875 688999999999986643211      1223344444443    457889


Q ss_pred             EEecCCCc----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-----CcccHHHHHHhC-----CCCCHH
Q 007255          433 LAATNRPH----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-----DDVDLRSIAEET-----ELFTGA  498 (611)
Q Consensus       433 I~~tn~~~----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-----~~~~~~~la~~~-----~g~s~~  498 (611)
                      |++||.++    .+|+++.|  ||+. +.++.|+.+++.+|++..+..+...     .+..+..++..+     +.|.+.
T Consensus       303 I~at~~~~~~~~~~d~aL~r--Rf~~-i~l~~p~~~e~~~iL~~~~~~~~~~~~~~i~~~al~~~~~ls~r~i~~~~lp~  379 (854)
T 1qvr_A          303 IGATTLDEYREIEKDPALER--RFQP-VYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPD  379 (854)
T ss_dssp             EEEECHHHHHHHTTCTTTCS--CCCC-EEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHH
T ss_pred             EEecCchHHhhhccCHHHHh--CCce-EEeCCCCHHHHHHHHHhhhhhhhhhcCCCCCHHHHHHHHHHHhhhcccccChH
Confidence            99999875    47999999  9994 9999999999999998766543211     233345555543     456678


Q ss_pred             HHHHHHHHHHHHHHHh
Q 007255          499 ELEGLCREAGIVALRE  514 (611)
Q Consensus       499 ~i~~~~~~a~~~a~~~  514 (611)
                      ....++.+|+..+..+
T Consensus       380 kai~lldea~a~~~~~  395 (854)
T 1qvr_A          380 KAIDLIDEAAARLRMA  395 (854)
T ss_dssp             HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            8888888887766544

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=99.71  E-value=1.7e-15  Score=188.13  Aligned_cols=329  Identities=19%  Similarity=0.209  Sum_probs=187.3

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh-CCcEEEEcccccccccccchHHHHHHHHHHHHh-----------hhh-cCCCe
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC-GAHLTVISPHSVHKAHVGESEKALREAFSQASS-----------HAL-SGKPS  118 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l-~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~-----------~~~-~~~~~  118 (611)
                      ...++||+||||||||++++..+..+ +..++.++.+.-.+      ...+...++....           .+. .++..
T Consensus      1303 ~~~pvLL~GptGtGKT~li~~~L~~l~~~~~~~infS~~Tt------a~~l~~~~e~~~e~~~~~~~G~~~~p~~~Gk~~ 1376 (3245)
T 3vkg_A         1303 EHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATT------PELLLKTFDHHCEYKRTPSGETVLRPTQLGKWL 1376 (3245)
T ss_dssp             TTCCCEEESSTTSSHHHHHHHHGGGCTTEEEEEECCCTTCC------HHHHHHHHHHHEEEEECTTSCEEEEESSTTCEE
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHhCCCCceEEEEeeCCCC------HHHHHHHHhhcceEEeccCCCcccCCCcCCceE
Confidence            45799999999999998887665554 55667777654322      2334444432110           111 24557


Q ss_pred             EEEEccccccCCCCCCCchhhHHHHHHHHHHH---hcCCCCCCCCCcEEEEEeecCc-----ccccHHhhccCCcceEEE
Q 007255          119 VVFIDEIDALCPRRDHRREQDVRIASQLFTLM---DSNKPSKTSVPHVVVVASTNRV-----DAIDPALRRSGRFDAEVE  190 (611)
Q Consensus       119 il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l---~~~~~~~~~~~~v~ii~ttn~~-----~~l~~~l~~~~Rf~~~i~  190 (611)
                      |+||||+|. +....++.....+++.+++..-   +..........++.+|+|+|++     ..+++++.|  ||. .++
T Consensus      1377 VlFiDDiNm-p~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r--~F~-vi~ 1452 (3245)
T 3vkg_A         1377 VVFCDEINL-PSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLR--HAP-ILL 1452 (3245)
T ss_dssp             EEEETTTTC-CCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHT--TCC-EEE
T ss_pred             EEEecccCC-CCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHh--hce-EEE
Confidence            999999974 3333344444444444444321   1111112223568899999997     378999998  996 699


Q ss_pred             ccCCCHHHHHHHHHHhhcCCC-C--------------------------------CCcccHHHHHHhccCCcc-------
Q 007255          191 VTVPTAEERFEILKLYTKKVP-L--------------------------------DANVDLEAIATSCNGYVG-------  230 (611)
Q Consensus       191 ~~~p~~~~r~~Il~~~~~~~~-~--------------------------------~~~~~~~~la~~~~g~~~-------  230 (611)
                      ++.|+.++...|+..++.... .                                +...+++++++.+.|...       
T Consensus      1453 i~~ps~esL~~If~til~~~l~~~p~l~~~~~~lv~ati~ly~~v~~~~lp~~k~HY~FnLRDLsrv~qGll~~~~~~~~ 1532 (3245)
T 3vkg_A         1453 VDFPSTSSLTQIYGTFNRALMKLLPNLRSFADNLTDAMVEFYSESQKRFTPDIQAHYIYSPRELSRWDRALLEAIQTMDG 1532 (3245)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTTSCGGGTTSHHHHHHHHHHHHHHHHHHSCTTTSTTCCCCHHHHHHHHHHHHHHHHTSSC
T ss_pred             eCCCCHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCCccccHHHHHHHHHHHHHhcCcccc
Confidence            999999999999876543211 0                                111234444444433211       


Q ss_pred             ccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhccCCccccc------ccccCCCcccccccchhHHHHHHHH
Q 007255          231 ADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRG------VTVEIPKVTWEDIGGLRDLKKKLQQ  304 (611)
Q Consensus       231 ~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~~~~~~------~~~~~~~~~~~~i~g~~~~k~~l~~  304 (611)
                      .+...+++.+.+++.+-+.|.-..........+.+........+.....      .-.+.-...+.++ ..+++++.+.+
T Consensus      1533 ~~~~~lvrLW~HE~~RVF~DRLv~~~Dr~~f~~~l~~~~~~~F~~~~~~~~~~pllf~~f~~~~Y~~v-~~~~l~~~l~~ 1611 (3245)
T 3vkg_A         1533 CTLEGLVRLWAHEALRLFQDRLVETEEKEWTDKKIDEVALKHFPSVNLDALKRPILYSNWLTKDYQPV-NRSDLREYVKA 1611 (3245)
T ss_dssp             CCTTHHHHHHHHHHHHHHTTTCSSHHHHHHHHHHHHHHHHHHCTTSCGGGGCSSCCCCSSCC----CC-CHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCcchhhhcccCcchhhhccccCccC-CHHHHHHHHHH
Confidence            1234455556666666666544433333333333333332222211100      0000001123333 34555555555


Q ss_pred             Hhhc---------------cCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchH
Q 007255          305 AVEW---------------PIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESE  369 (611)
Q Consensus       305 ~~~~---------------~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~  369 (611)
                      .+..               .+.|..+..|.-..|..++||+|..|+||+++++..|...+..++.+..+.-++  ..+..
T Consensus      1612 ~L~~yn~~~~~m~LVlF~daleHv~RI~RIL~qp~GhaLLVGvgGSGkqSLtrLAa~i~~~~vfqi~i~k~Y~--~~~f~ 1689 (3245)
T 3vkg_A         1612 RLKVFYEEELDVPLVLFNEVLDHILRIDRVFRQPQGHALLIGVSGGGKSVLSRFVAWMNGLSIYTIKVNNNYK--SSDFD 1689 (3245)
T ss_dssp             HHHTTC------CCCCCHHHHHHHHHHHHHHTSTTCCEEEEESTTSSHHHHHHHHHHHTTCEEECCC----CC--HHHHH
T ss_pred             HHHHHHhcccCceEEeHHHHHHHHHHHHHHHccCCCCeEEecCCCCcHHHHHHHHHHHhCCeeEEEeeeCCCC--HHHHH
Confidence            4432               122333444444567789999999999999999999999999999988765433  34556


Q ss_pred             HHHHHHHHHHHh-cCCcEEEEcccc
Q 007255          370 ALLRNTFQRARL-AAPSIIFFDEAD  393 (611)
Q Consensus       370 ~~~~~~~~~a~~-~~p~il~iDeid  393 (611)
                      .-++.++..|.. ..|.+++|+|.+
T Consensus      1690 eDLk~l~~~aG~~~~~~vFL~tD~q 1714 (3245)
T 3vkg_A         1690 DDLRMLLKRAGCKEEKICFIFDESN 1714 (3245)
T ss_dssp             HHHHHHHHHHHTSCCCEEEEEEGGG
T ss_pred             HHHHHHHHHHhcCCCCEEEEEeccc
Confidence            778899988854 567777777654

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=99.71  E-value=8.9e-17  Score=167.97  Aligned_cols=238  Identities=21%  Similarity=0.200  Sum_probs=147.6

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHH-----------------hhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEE
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAF-----------------SRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~-----------------~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~  353 (611)
                      .|+|++.+++.+...+..+.......                 ..-...++.++||+||||||||++|+++|+.++.+++
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~  101 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIA  101 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEE
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            47899999999998774322221110                 0011235678999999999999999999999999999


Q ss_pred             eecchhhc-cccccch-HHHHHHHHHHH----HhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--
Q 007255          354 SLSGAELY-SMYVGES-EALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--  425 (611)
Q Consensus       354 ~~~~~~~~-~~~~g~~-~~~~~~~~~~a----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--  425 (611)
                      .+++..+. ..|.|.. +..+...+..+    ....++||||||+|.+...++............+++.|+..|++..  
T Consensus       102 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~  181 (376)
T 1um8_A          102 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVN  181 (376)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC
T ss_pred             EecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhhcccee
Confidence            99998875 3455543 34455555432    2346789999999999776443222222223458899999998531  


Q ss_pred             -----------------CCCCeEEEEecCCC-----------------------------------------cccchhcc
Q 007255          426 -----------------QAKGILVLAATNRP-----------------------------------------HAIDAALM  447 (611)
Q Consensus       426 -----------------~~~~~~vI~~tn~~-----------------------------------------~~ld~al~  447 (611)
                                       ...++++|++||..                                         ..+.|+++
T Consensus       182 ~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~p~l~  261 (376)
T 1um8_A          182 IPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELI  261 (376)
T ss_dssp             ---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHH
T ss_pred             cccccccccCCcceEEEecCCeEEEecCCHHHHHHHHHHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcCCChHHh
Confidence                             12456788887721                                         12345666


Q ss_pred             CCCCccceeecCCCCHHHHHHHHHH----H-------h--cCCCC-CCcccHHHHHHhCC--CCCHHHHHHHHHHHHHHH
Q 007255          448 RPGRFDLVLYVPPPDLEARHEILRV----H-------T--RNMKV-GDDVDLRSIAEETE--LFTGAELEGLCREAGIVA  511 (611)
Q Consensus       448 r~gRf~~~i~~~~p~~~~r~~il~~----~-------~--~~~~~-~~~~~~~~la~~~~--g~s~~~i~~~~~~a~~~a  511 (611)
                      +  ||+.++.|++++.++...|+..    +       +  .+..+ .++..+..|+....  ....+++.+++..+...+
T Consensus       262 ~--R~~~~i~~~~l~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~le~~~~~~  339 (376)
T 1um8_A          262 G--RLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDFCLDI  339 (376)
T ss_dssp             T--TCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHHH
T ss_pred             c--CCCceeeccCCCHHHHHHHHhhhHHHHHHHHHHHHhhcCceEEECHHHHHHHHHHhcccccCcHHHHHHHHHHHHHH
Confidence            5  8988999999999999999862    1       1  11111 13334667776643  246789999999888877


Q ss_pred             HHhhcc----cccccHHHHHHHH
Q 007255          512 LREDIS----ATAVRNRHFQTVK  530 (611)
Q Consensus       512 ~~~~~~----~~~i~~~~~~~~l  530 (611)
                      +.+...    ...|+.+++..+.
T Consensus       340 ~~~~~~~~~~~~~i~~~~v~~~~  362 (376)
T 1um8_A          340 MFDLPKLKGSEVRITKDCVLKQA  362 (376)
T ss_dssp             HHTGGGGTTSEEEECHHHHTTSS
T ss_pred             HhhccCCCCCEEEEeHHHhcCCC
Confidence            665432    2246777666544

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.70  E-value=4.3e-16  Score=163.22  Aligned_cols=223  Identities=17%  Similarity=0.161  Sum_probs=156.6

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---------CCcEEeecch
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---------EASFFSLSGA  358 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---------~~~~~~~~~~  358 (611)
                      ..++++|.+...+.+...+...+.         ...+++++|+||||||||++|+++++.+         +..++.+++.
T Consensus        17 ~p~~~~gr~~~~~~l~~~l~~~~~---------~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~   87 (387)
T 2v1u_A           17 VPDVLPHREAELRRLAEVLAPALR---------GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNAR   87 (387)
T ss_dssp             CCSCCTTCHHHHHHHHHTTGGGTS---------SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETT
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHc---------CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECC
Confidence            447899999999999887754221         1445689999999999999999999988         7888889876


Q ss_pred             hhccc----------------cccc-hHHHHHHHHHHHHhc-CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHH
Q 007255          359 ELYSM----------------YVGE-SEALLRNTFQRARLA-APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTE  420 (611)
Q Consensus       359 ~~~~~----------------~~g~-~~~~~~~~~~~a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~  420 (611)
                      .....                ..|. .......++...... .|.||||||+|.+...+         .....+..++..
T Consensus        88 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~---------~~~~~l~~l~~~  158 (387)
T 2v1u_A           88 HRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRP---------GGQDLLYRITRI  158 (387)
T ss_dssp             TSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHST---------THHHHHHHHHHG
T ss_pred             cCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccC---------CCChHHHhHhhc
Confidence            53221                1122 223344555544333 37799999999885321         023455666666


Q ss_pred             hcCCCCCCCeEEEEecCCC---cccchhccCCCCccc-eeecCCCCHHHHHHHHHHHhcC--C-CCCCcccHHHHHHhCC
Q 007255          421 MDGLEQAKGILVLAATNRP---HAIDAALMRPGRFDL-VLYVPPPDLEARHEILRVHTRN--M-KVGDDVDLRSIAEETE  493 (611)
Q Consensus       421 l~~~~~~~~~~vI~~tn~~---~~ld~al~r~gRf~~-~i~~~~p~~~~r~~il~~~~~~--~-~~~~~~~~~~la~~~~  493 (611)
                      ++......++.+|++||.+   +.+++++.+  ||.. .+.|++|+.+++.+|++..+..  . ...++..++.+++.+.
T Consensus       159 ~~~~~~~~~~~~I~~t~~~~~~~~l~~~l~~--r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~  236 (387)
T 2v1u_A          159 NQELGDRVWVSLVGITNSLGFVENLEPRVKS--SLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAA  236 (387)
T ss_dssp             GGCC-----CEEEEECSCSTTSSSSCHHHHT--TTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHH
T ss_pred             hhhcCCCceEEEEEEECCCchHhhhCHHHHh--cCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHH
Confidence            5533215678999999988   678999998  8875 8999999999999999977653  1 1223445677887776


Q ss_pred             ---CCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhc
Q 007255          494 ---LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       494 ---g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~  533 (611)
                         | .++.+.++|+.+...+..+.  ...++.+++..++...
T Consensus       237 ~~~G-~~r~~~~~l~~a~~~a~~~~--~~~i~~~~v~~a~~~~  276 (387)
T 2v1u_A          237 REHG-DARRALDLLRVAGEIAERRR--EERVRREHVYSARAEI  276 (387)
T ss_dssp             SSSC-CHHHHHHHHHHHHHHHHHTT--CSCBCHHHHHHHHHHH
T ss_pred             Hhcc-CHHHHHHHHHHHHHHHHHcC--CCCcCHHHHHHHHHHH
Confidence               7 67888899998887766432  4568888888887655

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=99.70  E-value=2.2e-16  Score=161.54  Aligned_cols=196  Identities=22%  Similarity=0.279  Sum_probs=142.9

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccc
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH   93 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~   93 (611)
                      ....+++++|.+..++.+...+.....        +...+.++||+||||||||++++++++.++.+++.++++.+..  
T Consensus         7 ~p~~~~~~ig~~~~~~~l~~~l~~~~~--------~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~--   76 (324)
T 1hqc_A            7 RPKTLDEYIGQERLKQKLRVYLEAAKA--------RKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--   76 (324)
T ss_dssp             CCCSTTTCCSCHHHHHHHHHHHHHHHH--------HCSCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCS--
T ss_pred             CcccHHHhhCHHHHHHHHHHHHHHHHc--------cCCCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCC--
Confidence            345679999999999999988754211        0124578999999999999999999999999999998876532  


Q ss_pred             ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----C-------CCCC
Q 007255           94 VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----K-------TSVP  161 (611)
Q Consensus        94 ~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~-------~~~~  161 (611)
                          ...+...+..     ....+++|||||+|.+..          ..+..|+..++.....     .       ....
T Consensus        77 ----~~~l~~~l~~-----~~~~~~~l~lDEi~~l~~----------~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~  137 (324)
T 1hqc_A           77 ----PGDLAAILAN-----SLEEGDILFIDEIHRLSR----------QAEEHLYPAMEDFVMDIVIGQGPAARTIRLELP  137 (324)
T ss_dssp             ----HHHHHHHHTT-----TCCTTCEEEETTTTSCCH----------HHHHHHHHHHHHSEEEECCSSSSSCCCEEEECC
T ss_pred             ----hHHHHHHHHH-----hccCCCEEEEECCccccc----------chHHHHHHHHHhhhhHHhccccccccccccCCC
Confidence                2222222222     123578999999998853          4566777777754210     0       0113


Q ss_pred             cEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCccccHHHHHHHH
Q 007255          162 HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       162 ~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                      ++.+|++||.+..+++++.+  ||...+.+++|+.+++..+++.++....... +..+..++..+.|+ .+.+.++++.+
T Consensus       138 ~~~~i~~t~~~~~~~~~l~~--R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~-~r~l~~~l~~~  214 (324)
T 1hqc_A          138 RFTLIGATTRPGLITAPLLS--RFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGT-MRVAKRLFRRV  214 (324)
T ss_dssp             CCEEEEEESCCSSCSCSTTT--TCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCSC-HHHHHHHHHHH
T ss_pred             CEEEEEeCCCcccCCHHHHh--cccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccCC-HHHHHHHHHHH
Confidence            57899999999999999988  9977999999999999999999887654432 23477788887665 46666766665


Q ss_pred             H
Q 007255          241 T  241 (611)
Q Consensus       241 ~  241 (611)
                      .
T Consensus       215 ~  215 (324)
T 1hqc_A          215 R  215 (324)
T ss_dssp             T
T ss_pred             H
Confidence            4

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=99.69  E-value=9e-17  Score=175.04  Aligned_cols=229  Identities=24%  Similarity=0.270  Sum_probs=143.0

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc-------
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-------   91 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~-------   91 (611)
                      ++++|++++++.+.+.+........      . ++.+++|+||||||||++++++|..++.++..+++..+..       
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~------~-~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g~  153 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKS------L-KGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGH  153 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSS------C-CSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC----------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhccc------C-CCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhhH
Confidence            4599999999999877654322211      1 4578999999999999999999999999999998876433       


Q ss_pred             --ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC---------CCCC
Q 007255           92 --AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS---------KTSV  160 (611)
Q Consensus        92 --~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~---------~~~~  160 (611)
                        .+.|.....+...|..+..     ...|+||||+|.+.+...+      ..+..|+..++.....         ....
T Consensus       154 ~~~~ig~~~~~~~~~~~~a~~-----~~~vl~lDEid~l~~~~~~------~~~~~LL~~ld~~~~~~~~~~~~~~~~~~  222 (543)
T 3m6a_A          154 RRTYVGAMPGRIIQGMKKAGK-----LNPVFLLDEIDKMSSDFRG------DPSSAMLEVLDPEQNSSFSDHYIEETFDL  222 (543)
T ss_dssp             ----------CHHHHHHTTCS-----SSEEEEEEESSSCC---------------CCGGGTCTTTTTBCCCSSSCCCCBC
T ss_pred             HHHHhccCchHHHHHHHHhhc-----cCCEEEEhhhhhhhhhhcc------CHHHHHHHHHhhhhcceeecccCCeeecc
Confidence              2333333344444444321     2349999999999775321      2456677777643211         1112


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhc-----CCCCC------CcccHHHHHHhccC-C
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK-----KVPLD------ANVDLEAIATSCNG-Y  228 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~-----~~~~~------~~~~~~~la~~~~g-~  228 (611)
                      .++++|+|||.++.+++++++  ||. .|.|+.|+.+++..|++.++.     .....      .+..+..++..+.+ .
T Consensus       223 ~~v~iI~ttN~~~~l~~aL~~--R~~-vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~~~~~~~~  299 (543)
T 3m6a_A          223 SKVLFIATANNLATIPGPLRD--RME-IINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDIIRYYTREA  299 (543)
T ss_dssp             SSCEEEEECSSTTTSCHHHHH--HEE-EEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHHHHHCCCS
T ss_pred             cceEEEeccCccccCCHHHHh--hcc-eeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHHHhCChhh
Confidence            468999999999999999999  995 799999999999999988752     22221      12235555554443 3


Q ss_pred             ccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHh
Q 007255          229 VGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARS  270 (611)
Q Consensus       229 ~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~  270 (611)
                      ..+.+++.+..++..+..+...  .......++.+++.....
T Consensus       300 ~vR~L~~~i~~~~~~aa~~~~~--~~~~~~~It~~~l~~~Lg  339 (543)
T 3m6a_A          300 GVRSLERQLAAICRKAAKAIVA--EERKRITVTEKNLQDFIG  339 (543)
T ss_dssp             SSHHHHHHHHHHHHHHHHHHHT--TCCSCCEECTTTTHHHHC
T ss_pred             chhHHHHHHHHHHHHHHHHHHh--cCCcceecCHHHHHHHhC
Confidence            4466666555555444333221  112334567777766654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.69  E-value=3.4e-17  Score=186.45  Aligned_cols=189  Identities=22%  Similarity=0.281  Sum_probs=137.3

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEe
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFS  354 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~  354 (611)
                      ....+++++|.+...+.+.+.+..             ....++||+||||||||++|+++|..+          ++.++.
T Consensus       175 ~~~~ld~iiG~~~~i~~l~~~l~~-------------~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~  241 (758)
T 3pxi_A          175 KEDSLDPVIGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMT  241 (758)
T ss_dssp             TSSCSCCCCCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEEC
T ss_pred             hhCCCCCccCchHHHHHHHHHHhC-------------CCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEE
Confidence            345788999999999999888763             345679999999999999999999997          888888


Q ss_pred             ecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEE
Q 007255          355 LSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLA  434 (611)
Q Consensus       355 ~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~  434 (611)
                      +++   ..+|.|+++..++.+|..+....|+|||||      +.            ....+.|+..|    ..+.+.+|+
T Consensus       242 ~~~---g~~~~G~~e~~l~~~~~~~~~~~~~iLfiD------~~------------~~~~~~L~~~l----~~~~v~~I~  296 (758)
T 3pxi_A          242 LDM---GTKYRGEFEDRLKKVMDEIRQAGNIILFID------AA------------IDASNILKPSL----ARGELQCIG  296 (758)
T ss_dssp             C-------------CTTHHHHHHHHHTCCCCEEEEC------C--------------------CCCT----TSSSCEEEE
T ss_pred             ecc---cccccchHHHHHHHHHHHHHhcCCEEEEEc------Cc------------hhHHHHHHHHH----hcCCEEEEe
Confidence            887   457889999999999999999899999999      00            12334444444    356799999


Q ss_pred             ecCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcc-----cHHHHHHh-----CCCCCHHH
Q 007255          435 ATNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDV-----DLRSIAEE-----TELFTGAE  499 (611)
Q Consensus       435 ~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~-----~~~~la~~-----~~g~s~~~  499 (611)
                      +||.++     .+|+++.|  ||+ .|.|+.|+.+++.+||+.....+.....+     .+..++..     .+++.++.
T Consensus       297 at~~~~~~~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~il~~~~~~~~~~~~~~i~~~al~~~~~~s~~~i~~~~~p~~  373 (758)
T 3pxi_A          297 ATTLDEYRKYIEKDAALER--RFQ-PIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDK  373 (758)
T ss_dssp             ECCTTTTHHHHTTCSHHHH--SEE-EEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHH
T ss_pred             CCChHHHHHHhhccHHHHh--hCc-EEEeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccCcCCcH
Confidence            999988     79999999  996 69999999999999999877765433332     24444443     34567778


Q ss_pred             HHHHHHHHHHHHHHh
Q 007255          500 LEGLCREAGIVALRE  514 (611)
Q Consensus       500 i~~~~~~a~~~a~~~  514 (611)
                      ...++.+|+..+..+
T Consensus       374 ai~ll~~a~~~~~~~  388 (758)
T 3pxi_A          374 AIDLIDEAGSKVRLR  388 (758)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhh
Confidence            888888887665544

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.69  E-value=6e-17  Score=151.92  Aligned_cols=159  Identities=22%  Similarity=0.300  Sum_probs=119.0

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEee
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSL  355 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~  355 (611)
                      +..|++++|.+...+.+.+.+..             ..+.+++|+||||||||++|+++++.+          +.+++.+
T Consensus        18 ~~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~   84 (195)
T 1jbk_A           18 QGKLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL   84 (195)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE
T ss_pred             hccccccccchHHHHHHHHHHhc-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEe
Confidence            45688999999988888877653             335679999999999999999999987          7888999


Q ss_pred             cchhhc--cccccchHHHHHHHHHHHHh-cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEE
Q 007255          356 SGAELY--SMYVGESEALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILV  432 (611)
Q Consensus       356 ~~~~~~--~~~~g~~~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  432 (611)
                      ++..+.  ..+.+.....+..++..+.. ..+.||+|||+|.+...+....  .    ..+.+.+...+    ...++.+
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~--~----~~~~~~l~~~~----~~~~~~~  154 (195)
T 1jbk_A           85 DMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADG--A----MDAGNMLKPAL----ARGELHC  154 (195)
T ss_dssp             CHHHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT--------C----CCCHHHHHHHH----HTTSCCE
T ss_pred             eHHHHhccCCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccc--h----HHHHHHHHHhh----ccCCeEE
Confidence            988876  35566667778888876643 5577999999999975532111  1    11223333333    2356788


Q ss_pred             EEecCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHH
Q 007255          433 LAATNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEIL  470 (611)
Q Consensus       433 I~~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il  470 (611)
                      |++||.++     .+++++.+  ||+ .+.++.|+.++|.+|+
T Consensus       155 i~~~~~~~~~~~~~~~~~l~~--r~~-~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          155 VGATTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             EEEECHHHHHHHTTTCHHHHT--TEE-EEECCCCCHHHHHTTC
T ss_pred             EEeCCHHHHHHHHhcCHHHHH--Hhc-eeecCCCCHHHHHHHh
Confidence            88999876     68999999  999 6999999999998875

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=99.69  E-value=2.4e-15  Score=154.22  Aligned_cols=215  Identities=21%  Similarity=0.254  Sum_probs=155.1

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~  364 (611)
                      ...++++++|++.+++.+...+.....        ...++.+++|+||||||||++++++|.++++++...+++.+..  
T Consensus        20 r~~~l~~~~g~~~~~~~l~~~i~~~~~--------~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~~--   89 (334)
T 1in4_A           20 RPKSLDEFIGQENVKKKLSLALEAAKM--------RGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVK--   89 (334)
T ss_dssp             SCSSGGGCCSCHHHHHHHHHHHHHHHH--------HTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCS--
T ss_pred             CCccHHHccCcHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhcC--
Confidence            345788999999888888776653100        1134567999999999999999999999999887666544321  


Q ss_pred             ccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC----------------CCC
Q 007255          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE----------------QAK  428 (611)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~----------------~~~  428 (611)
                          ...+..++..  ...++|+||||+|.+..              ...+.|+..++...                .-.
T Consensus        90 ----~~~l~~~~~~--~~~~~v~~iDE~~~l~~--------------~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~  149 (334)
T 1in4_A           90 ----QGDMAAILTS--LERGDVLFIDEIHRLNK--------------AVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQ  149 (334)
T ss_dssp             ----HHHHHHHHHH--CCTTCEEEEETGGGCCH--------------HHHHHHHHHHHTSCCCC---------------C
T ss_pred             ----HHHHHHHHHH--ccCCCEEEEcchhhcCH--------------HHHHHHHHHHHhcccceeeccCcccccccccCC
Confidence                1223333321  23567999999998842              12233343343211                012


Q ss_pred             CeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCC-cccHHHHHHhCCCCCHHHHHHHHHHH
Q 007255          429 GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGD-DVDLRSIAEETELFTGAELEGLCREA  507 (611)
Q Consensus       429 ~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~-~~~~~~la~~~~g~s~~~i~~~~~~a  507 (611)
                      .+.++++|+.+..+++++++  ||...+.+++|+.+++.+|++...+...... +..+..++..+.| +++.+.++++.+
T Consensus       150 ~~~li~at~~~~~Ls~~l~s--R~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~~~~~~~~ia~~~~G-~~R~a~~ll~~~  226 (334)
T 1in4_A          150 PFTLVGATTRSGLLSSPLRS--RFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRG-TPRIAIRLTKRV  226 (334)
T ss_dssp             CCEEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTT-CHHHHHHHHHHH
T ss_pred             CeEEEEecCCcccCCHHHHH--hcCceeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhcCC-ChHHHHHHHHHH
Confidence            46788899999999999999  9998899999999999999997766554443 3447889999988 789999999988


Q ss_pred             HHHHHHhhcccccccHHHHHHHHhhcC
Q 007255          508 GIVALREDISATAVRNRHFQTVKDSLK  534 (611)
Q Consensus       508 ~~~a~~~~~~~~~i~~~~~~~~l~~~~  534 (611)
                      ...|..+.  ...|+.+++..++..+.
T Consensus       227 ~~~a~~~~--~~~It~~~v~~al~~~~  251 (334)
T 1in4_A          227 RDMLTVVK--ADRINTDIVLKTMEVLN  251 (334)
T ss_dssp             HHHHHHHT--CSSBCHHHHHHHHHHHT
T ss_pred             HHHHHHcC--CCCcCHHHHHHHHHHhC
Confidence            87776543  45699999999998765

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.69  E-value=8e-17  Score=174.99  Aligned_cols=227  Identities=15%  Similarity=0.163  Sum_probs=140.6

Q ss_pred             ccccCCCcccccccchhHHHHHHHHHhhccC-CChhHHhhcCC---CCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPI-KHSTAFSRLGI---SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       280 ~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~-~~~~~~~~~~~---~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      +.....+.+|++++|++..++.+.+++.... ..+..+.+.|.   .+++++||+||||||||++|+++|++++.+++.+
T Consensus        29 W~ekyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~i  108 (516)
T 1sxj_A           29 WTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQ  108 (516)
T ss_dssp             HHHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEE
T ss_pred             cccccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEE
Confidence            3334566789999999999999998876411 11112222222   3567899999999999999999999999999999


Q ss_pred             cchhhccccccchHH-------HHHHHHHHH-----HhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcC
Q 007255          356 SGAELYSMYVGESEA-------LLRNTFQRA-----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (611)
Q Consensus       356 ~~~~~~~~~~g~~~~-------~~~~~~~~a-----~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~  423 (611)
                      +++++...+......       .+..+|..+     ....+.||||||+|.+....           ...+..|+..++.
T Consensus       109 n~s~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~-----------~~~l~~L~~~l~~  177 (516)
T 1sxj_A          109 NASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGD-----------RGGVGQLAQFCRK  177 (516)
T ss_dssp             CTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTS-----------TTHHHHHHHHHHH
T ss_pred             eCCCcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhh-----------HHHHHHHHHHHHh
Confidence            998775532111000       011222222     12457899999999985421           1234566666652


Q ss_pred             CCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCC-CCcccHHHHHHhCCCCCHHHHHH
Q 007255          424 LEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKV-GDDVDLRSIAEETELFTGAELEG  502 (611)
Q Consensus       424 ~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~-~~~~~~~~la~~~~g~s~~~i~~  502 (611)
                        ....+++|+++.....+. .+.|   +...+.|+.|+.+++.+++...+....+ .++..+..+++.+.| +.+.+.+
T Consensus       178 --~~~~iIli~~~~~~~~l~-~l~~---r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~~l~~la~~s~G-diR~~i~  250 (516)
T 1sxj_A          178 --TSTPLILICNERNLPKMR-PFDR---VCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRG-DIRQVIN  250 (516)
T ss_dssp             --CSSCEEEEESCTTSSTTG-GGTT---TSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTT-CHHHHHH
T ss_pred             --cCCCEEEEEcCCCCccch-hhHh---ceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-cHHHHHH
Confidence              333455555444434443 3443   4458999999999999999866543222 234458899998876 3444444


Q ss_pred             HHHHHHHHHHHhhcccccccHHHHHHHHh
Q 007255          503 LCREAGIVALREDISATAVRNRHFQTVKD  531 (611)
Q Consensus       503 ~~~~a~~~a~~~~~~~~~i~~~~~~~~l~  531 (611)
                      +++.+   +.    ....++.+++..++.
T Consensus       251 ~L~~~---~~----~~~~It~~~v~~~~~  272 (516)
T 1sxj_A          251 LLSTI---ST----TTKTINHENINEISK  272 (516)
T ss_dssp             HHTHH---HH----HSSCCCTTHHHHHHH
T ss_pred             HHHHH---Hh----cCCCCchHHHHHHHH
Confidence            44332   22    223455555555443

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=99.68  E-value=3.2e-16  Score=152.80  Aligned_cols=205  Identities=16%  Similarity=0.126  Sum_probs=142.8

Q ss_pred             Ccccccccc---hhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchh
Q 007255          286 KVTWEDIGG---LRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAE  359 (611)
Q Consensus       286 ~~~~~~i~g---~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~  359 (611)
                      ..+|++++|   .+.+.+.+...+..             ..+++++|+||||||||++|++++.++   +.+++.+++.+
T Consensus        24 ~~~~~~~~~~~~~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~   90 (242)
T 3bos_A           24 DETFTSYYPAAGNDELIGALKSAASG-------------DGVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGI   90 (242)
T ss_dssp             TCSTTTSCC--CCHHHHHHHHHHHHT-------------CSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             CCChhhccCCCCCHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHH
Confidence            367888886   24566666665542             245689999999999999999999887   47788888887


Q ss_pred             hccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCe-EEEEecCC
Q 007255          360 LYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGI-LVLAATNR  438 (611)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~-~vI~~tn~  438 (611)
                      +...+....        .  ....+.+|+|||+|.+...            ......|+..++.....+.+ +|+.+++.
T Consensus        91 ~~~~~~~~~--------~--~~~~~~vliiDe~~~~~~~------------~~~~~~l~~~l~~~~~~~~~~ii~~~~~~  148 (242)
T 3bos_A           91 HASISTALL--------E--GLEQFDLICIDDVDAVAGH------------PLWEEAIFDLYNRVAEQKRGSLIVSASAS  148 (242)
T ss_dssp             GGGSCGGGG--------T--TGGGSSEEEEETGGGGTTC------------HHHHHHHHHHHHHHHHHCSCEEEEEESSC
T ss_pred             HHHHHHHHH--------H--hccCCCEEEEeccccccCC------------HHHHHHHHHHHHHHHHcCCCeEEEEcCCC
Confidence            765432111        1  1145679999999987422            11234444444433334444 55545444


Q ss_pred             Cc---ccchhccCCCCcc--ceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 007255          439 PH---AIDAALMRPGRFD--LVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVAL  512 (611)
Q Consensus       439 ~~---~ld~al~r~gRf~--~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~  512 (611)
                      +.   .+++++.+  ||.  ..+.+++|+.+++.++++..+...... ++..++.+++.+.| +.+++.+++..+...+.
T Consensus       149 ~~~~~~~~~~l~~--r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~l~~~l~~~~~~a~  225 (242)
T 3bos_A          149 PMEAGFVLPDLVS--RMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQLPEDVGRFLLNRMAR-DLRTLFDVLDRLDKASM  225 (242)
T ss_dssp             TTTTTCCCHHHHH--HHHHSEEEECCCCCGGGHHHHHHHHHHHTTCCCCHHHHHHHHHHTTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhhh--HhhcCceEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccC-CHHHHHHHHHHHHHHHH
Confidence            54   45678887  885  799999999999999999877654433 34457888898877 88999999998888775


Q ss_pred             HhhcccccccHHHHHHHHh
Q 007255          513 REDISATAVRNRHFQTVKD  531 (611)
Q Consensus       513 ~~~~~~~~i~~~~~~~~l~  531 (611)
                      .+   .+.|+.+++..++.
T Consensus       226 ~~---~~~It~~~v~~~l~  241 (242)
T 3bos_A          226 VH---QRKLTIPFVKEMLR  241 (242)
T ss_dssp             HH---TCCCCHHHHHHHHT
T ss_pred             Hh---CCCCcHHHHHHHhh
Confidence            44   35689988888764

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.68  E-value=4.2e-16  Score=151.94  Aligned_cols=209  Identities=16%  Similarity=0.203  Sum_probs=147.4

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecc------
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSG------  357 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~------  357 (611)
                      ..+..+++++|.+...+.+.+.+..           + ..++.++|+||||+|||++++++++.++........      
T Consensus        17 ~~p~~~~~~~g~~~~~~~l~~~l~~-----------~-~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~   84 (250)
T 1njg_A           17 WRPQTFADVVGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCD   84 (250)
T ss_dssp             TCCCSGGGCCSCHHHHHHHHHHHHH-----------T-CCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSH
T ss_pred             cCCccHHHHhCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccH
Confidence            4456788999999999999888763           1 234579999999999999999999987542110000      


Q ss_pred             ----------hhhccc--cccchHHHHHHHHHHHH----hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHh
Q 007255          358 ----------AELYSM--YVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEM  421 (611)
Q Consensus       358 ----------~~~~~~--~~g~~~~~~~~~~~~a~----~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l  421 (611)
                                .++...  ........++.++..+.    ...+.+|+|||+|.+.              ....+.|+..+
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~--------------~~~~~~l~~~l  150 (250)
T 1njg_A           85 NCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLS--------------RHSFNALLKTL  150 (250)
T ss_dssp             HHHHHHTTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSC--------------HHHHHHHHHHH
T ss_pred             HHHHHhccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECccccc--------------HHHHHHHHHHH
Confidence                      000000  00112334445554432    2346799999999872              34567788888


Q ss_pred             cCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHH
Q 007255          422 DGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAEL  500 (611)
Q Consensus       422 ~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i  500 (611)
                      +.  ...++.+|++||.++.+++++.+  |+ ..+.+++|+.++..++++..+...... ++..++.+++.+.| +++.+
T Consensus       151 ~~--~~~~~~~i~~t~~~~~~~~~l~~--r~-~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G-~~~~~  224 (250)
T 1njg_A          151 EE--PPEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEG-SLRDA  224 (250)
T ss_dssp             HS--CCTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHTT-CHHHH
T ss_pred             hc--CCCceEEEEEeCChHhCCHHHHH--Hh-hhccCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCC-CHHHH
Confidence            73  45678899999999999999988  76 489999999999999999777654432 34457889999988 78999


Q ss_pred             HHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          501 EGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       501 ~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      .++++.+...+      ...|+.+++..++
T Consensus       225 ~~~~~~~~~~~------~~~i~~~~v~~~~  248 (250)
T 1njg_A          225 LSLTDQAIASG------DGQVSTQAVSAML  248 (250)
T ss_dssp             HHHHHHHHTTT------TSSBCHHHHHHHS
T ss_pred             HHHHHHHHhcc------CceecHHHHHHHh
Confidence            99988775332      2368888887765

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.68  E-value=5.6e-16  Score=160.42  Aligned_cols=211  Identities=16%  Similarity=0.127  Sum_probs=149.2

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC------CcEEee
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE------ASFFSL  355 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~------~~~~~~  355 (611)
                      ....+.+|++++|++.+++.+...+..           + .. .++||+||||||||++|+++|..++      ..++.+
T Consensus        29 ~k~~p~~~~~i~g~~~~~~~l~~~l~~-----------~-~~-~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~   95 (353)
T 1sxj_D           29 EKYRPKNLDEVTAQDHAVTVLKKTLKS-----------A-NL-PHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILEL   95 (353)
T ss_dssp             HHTCCSSTTTCCSCCTTHHHHHHHTTC-----------T-TC-CCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEE
T ss_pred             HhcCCCCHHHhhCCHHHHHHHHHHHhc-----------C-CC-CEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEE
Confidence            345567899999999999999888763           1 22 3499999999999999999999864      357777


Q ss_pred             cchhhccccccchHHHHHHHHHHHHh----------------cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHH
Q 007255          356 SGAELYSMYVGESEALLRNTFQRARL----------------AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLT  419 (611)
Q Consensus       356 ~~~~~~~~~~g~~~~~~~~~~~~a~~----------------~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~  419 (611)
                      ++++..+      ...++..+.....                ..+.||||||+|.+.              ....+.|+.
T Consensus        96 ~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~--------------~~~~~~Ll~  155 (353)
T 1sxj_D           96 NASDERG------ISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMT--------------ADAQSALRR  155 (353)
T ss_dssp             CSSSCCC------HHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSC--------------HHHHHHHHH
T ss_pred             ccccccc------hHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccC--------------HHHHHHHHH
Confidence            7765421      1112222211111                234599999999873              234577888


Q ss_pred             HhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHH
Q 007255          420 EMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGA  498 (611)
Q Consensus       420 ~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~  498 (611)
                      .|+.  ......+|++||.++.+++++.+  |+. .+.|++|+.++...+++..+....+. ++..++.+++.+.| +.+
T Consensus       156 ~le~--~~~~~~~il~~~~~~~l~~~l~s--R~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G-~~r  229 (353)
T 1sxj_D          156 TMET--YSGVTRFCLICNYVTRIIDPLAS--QCS-KFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAG-DLR  229 (353)
T ss_dssp             HHHH--TTTTEEEEEEESCGGGSCHHHHH--HSE-EEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSS-CHH
T ss_pred             HHHh--cCCCceEEEEeCchhhCcchhhc--cCc-eEEeCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCC-CHH
Confidence            8873  44567777889999999999998  887 89999999999999999776554432 44567889999888 567


Q ss_pred             HHHHHHHHHHHHHHHhhcccccccHHHHHHHHhh
Q 007255          499 ELEGLCREAGIVALREDISATAVRNRHFQTVKDS  532 (611)
Q Consensus       499 ~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~  532 (611)
                      .+.++++.+...+-... ....|+.+++..++..
T Consensus       230 ~~~~~l~~~~~~~~~~~-~~~~It~~~v~~~~~~  262 (353)
T 1sxj_D          230 RGITLLQSASKGAQYLG-DGKNITSTQVEELAGV  262 (353)
T ss_dssp             HHHHHHHHTHHHHHHHC-SCCCCCHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhcCCCc-cCccccHHHHHHHhCC
Confidence            77777776655443221 1115888888777653

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.67  E-value=1e-15  Score=162.20  Aligned_cols=209  Identities=20%  Similarity=0.241  Sum_probs=147.1

Q ss_pred             ccccccCCcHHHH---HHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccc
Q 007255           16 KAEEAIGGNRAAV---EALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA   92 (611)
Q Consensus        16 ~~~~~i~G~~~~~---~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~   92 (611)
                      ..+++++|++..+   +.|...+...             ...++||+||||||||++++++++.++.+++.+++...   
T Consensus        23 ~~l~~ivGq~~~~~~~~~L~~~i~~~-------------~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~~---   86 (447)
T 3pvs_A           23 ENLAQYIGQQHLLAAGKPLPRAIEAG-------------HLHSMILWGPPGTGKTTLAEVIARYANADVERISAVTS---   86 (447)
T ss_dssp             CSTTTCCSCHHHHSTTSHHHHHHHHT-------------CCCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTTC---
T ss_pred             CCHHHhCCcHHHHhchHHHHHHHHcC-------------CCcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEeccC---
Confidence            6789999999999   7777776541             22689999999999999999999999999999986543   


Q ss_pred             cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee--c
Q 007255           93 HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST--N  170 (611)
Q Consensus        93 ~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt--n  170 (611)
                          ....++.++..+......++++||||||+|.+..          ..+..|+..++..        .+++|++|  |
T Consensus        87 ----~~~~ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~----------~~q~~LL~~le~~--------~v~lI~att~n  144 (447)
T 3pvs_A           87 ----GVKEIREAIERARQNRNAGRRTILFVDEVHRFNK----------SQQDAFLPHIEDG--------TITFIGATTEN  144 (447)
T ss_dssp             ----CHHHHHHHHHHHHHHHHTTCCEEEEEETTTCC----------------CCHHHHHTT--------SCEEEEEESSC
T ss_pred             ----CHHHHHHHHHHHHHhhhcCCCcEEEEeChhhhCH----------HHHHHHHHHHhcC--------ceEEEecCCCC
Confidence                2344666666666555556789999999998854          3356678888752        35666665  4


Q ss_pred             CcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCC-------CC-CcccHHHHHHhccCCccccHHHHHHHHHH
Q 007255          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP-------LD-ANVDLEAIATSCNGYVGADLEALCREATM  242 (611)
Q Consensus       171 ~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~-------~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~~  242 (611)
                      +...+++++.+  |+. .+.+++|+.+++..+++..+....       .. .+..++.++..+.| ..+.+.++++.+..
T Consensus       145 ~~~~l~~aL~s--R~~-v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~G-d~R~lln~Le~a~~  220 (447)
T 3pvs_A          145 PSFELNSALLS--RAR-VYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNG-DARRALNTLEMMAD  220 (447)
T ss_dssp             GGGSSCHHHHT--TEE-EEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCS-CHHHHHHHHHHHHH
T ss_pred             cccccCHHHhC--cee-EEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCC-CHHHHHHHHHHHHH
Confidence            45589999998  885 788999999999999999887522       11 12236777777655 45566667776654


Q ss_pred             HHhhhcccccccccccchhHHHHHHHHhcc
Q 007255          243 SAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       243 ~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i  272 (611)
                      .+...      ..+...++.+++..+....
T Consensus       221 ~a~~~------~~~~~~It~e~v~~~l~~~  244 (447)
T 3pvs_A          221 MAEVD------DSGKRVLKPELLTEIAGER  244 (447)
T ss_dssp             HSCBC------TTSCEECCHHHHHHHHTCC
T ss_pred             hcccc------cCCCCccCHHHHHHHHhhh
Confidence            43211      0122357788887776544

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.67  E-value=2.8e-16  Score=159.78  Aligned_cols=204  Identities=18%  Similarity=0.252  Sum_probs=142.3

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcccc--
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMY--  364 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~--  364 (611)
                      ++++|++.+++.+...+.......    .....+..++||+||||||||++|+++|..+   +.+++.++++.+....  
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~----~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~   92 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGL----KDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAV   92 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTC----SCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCC----CCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccH
Confidence            457899999998888776421000    0012334579999999999999999999998   5568888887664321  


Q ss_pred             ---c-------cchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC--------
Q 007255          365 ---V-------GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ--------  426 (611)
Q Consensus       365 ---~-------g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--------  426 (611)
                         .       |...  ...+........++|+||||+|.+.              ..+.+.|+..|+...-        
T Consensus        93 ~~l~g~~~~~~~~~~--~~~~~~~~~~~~~~vl~lDEi~~l~--------------~~~~~~Ll~~le~~~~~~~~~~~~  156 (311)
T 4fcw_A           93 SRLIGAPPGYVGYEE--GGQLTEAVRRRPYSVILFDAIEKAH--------------PDVFNILLQMLDDGRLTDSHGRTV  156 (311)
T ss_dssp             HHHHCCCTTSTTTTT--CCHHHHHHHHCSSEEEEEETGGGSC--------------HHHHHHHHHHHHHSEEECTTSCEE
T ss_pred             HHhcCCCCccccccc--cchHHHHHHhCCCeEEEEeChhhcC--------------HHHHHHHHHHHhcCEEEcCCCCEE
Confidence               1       1110  0123333444556899999999872              4577888888864321        


Q ss_pred             -CCCeEEEEecCC--------------------------CcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCC--
Q 007255          427 -AKGILVLAATNR--------------------------PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNM--  477 (611)
Q Consensus       427 -~~~~~vI~~tn~--------------------------~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~--  477 (611)
                       ..++++|+|||.                          ...+++++++  ||+.++.+++|+.+++..|++.++..+  
T Consensus       157 ~~~~~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~--R~~~~~~~~p~~~~~~~~i~~~~l~~~~~  234 (311)
T 4fcw_A          157 DFRNTVIIMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQMSYLRA  234 (311)
T ss_dssp             ECTTEEEEEEESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHTHHHHH
T ss_pred             ECCCcEEEEecccCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHh--cCCeEEEeCCCCHHHHHHHHHHHHHHHHH
Confidence             136789999998                          4467888887  999999999999999999999765442  


Q ss_pred             -------CC-CCcccHHHHHHhCC--CCCHHHHHHHHHHHHHHHHHhh
Q 007255          478 -------KV-GDDVDLRSIAEETE--LFTGAELEGLCREAGIVALRED  515 (611)
Q Consensus       478 -------~~-~~~~~~~~la~~~~--g~s~~~i~~~~~~a~~~a~~~~  515 (611)
                             .. .++..++.|+....  ..+.++++++++.+...+..+.
T Consensus       235 ~~~~~~~~~~~~~~~~~~l~~~~~~~~gn~R~L~~~i~~~~~~~~~~~  282 (311)
T 4fcw_A          235 RLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQK  282 (311)
T ss_dssp             HHHTTTCEEEECHHHHHHHHHHSCBTTTBTTTHHHHHHHHTHHHHHHH
T ss_pred             HHHhCCcEEEeCHHHHHHHHHhCCCccCCchhHHHHHHHHHHHHHHHH
Confidence                   11 13344677777765  5678899999998877666544

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=99.66  E-value=1.5e-15  Score=155.38  Aligned_cols=178  Identities=19%  Similarity=0.285  Sum_probs=129.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      ..|++++|++++++.|.+++..            -..+..+|++||||||||++++++++.++.+++.+++++..     
T Consensus        23 ~~~~~ivg~~~~~~~l~~~l~~------------~~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~~-----   85 (324)
T 3u61_B           23 STIDECILPAFDKETFKSITSK------------GKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCK-----   85 (324)
T ss_dssp             CSTTTSCCCHHHHHHHHHHHHT------------TCCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTTCC-----
T ss_pred             CCHHHHhCcHHHHHHHHHHHHc------------CCCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcccccC-----
Confidence            6789999999999999998752            23456788899999999999999999999999999987632     


Q ss_pred             chHHHHHHHHHHHH-hhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc
Q 007255           96 ESEKALREAFSQAS-SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA  174 (611)
Q Consensus        96 ~~~~~l~~~f~~~~-~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~  174 (611)
                        ...++..+.... .....+.+.||||||+|.+..         ...+..|+..++...      .++.+|++||.+..
T Consensus        86 --~~~i~~~~~~~~~~~~~~~~~~vliiDEi~~l~~---------~~~~~~L~~~le~~~------~~~~iI~~~n~~~~  148 (324)
T 3u61_B           86 --IDFVRGPLTNFASAASFDGRQKVIVIDEFDRSGL---------AESQRHLRSFMEAYS------SNCSIIITANNIDG  148 (324)
T ss_dssp             --HHHHHTHHHHHHHBCCCSSCEEEEEEESCCCGGG---------HHHHHHHHHHHHHHG------GGCEEEEEESSGGG
T ss_pred             --HHHHHHHHHHHHhhcccCCCCeEEEEECCcccCc---------HHHHHHHHHHHHhCC------CCcEEEEEeCCccc
Confidence              233444333322 222234678999999998851         245677788877532      25688999999999


Q ss_pred             ccHHhhccCCcceEEEccCCCHHHHHHHHHHhh-------cC--CCCCCcccHHHHHHhccCCcc
Q 007255          175 IDPALRRSGRFDAEVEVTVPTAEERFEILKLYT-------KK--VPLDANVDLEAIATSCNGYVG  230 (611)
Q Consensus       175 l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~-------~~--~~~~~~~~~~~la~~~~g~~~  230 (611)
                      +++++++  ||. .+.|++|+.+++.+|++.+.       ..  ..++....+..++..+.|...
T Consensus       149 l~~~l~s--R~~-~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R  210 (324)
T 3u61_B          149 IIKPLQS--RCR-VITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFR  210 (324)
T ss_dssp             SCTTHHH--HSE-EEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTT
T ss_pred             cCHHHHh--hCc-EEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHH
Confidence            9999999  885 79999999999877665433       22  222221346777777665433

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=99.66  E-value=4.5e-16  Score=158.67  Aligned_cols=206  Identities=19%  Similarity=0.195  Sum_probs=144.5

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSG  357 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~  357 (611)
                      ...+.+|++++|++.+++.+...+..           + ..+ ++||+||||||||++|+++|+.+     +.+++.+++
T Consensus        10 k~~p~~~~~~~g~~~~~~~l~~~l~~-----------~-~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   76 (319)
T 2chq_A           10 KYRPRTLDEVVGQDEVIQRLKGYVER-----------K-NIP-HLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNA   76 (319)
T ss_dssp             TTSCSSGGGSCSCHHHHHHHHTTTTT-----------T-CCC-CEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEET
T ss_pred             hcCCCCHHHHhCCHHHHHHHHHHHhC-----------C-CCC-eEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeC
Confidence            45567899999999999988887653           1 222 49999999999999999999987     345677777


Q ss_pred             hhhccccccchHHHHHHHHHHHH--hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEe
Q 007255          358 AELYSMYVGESEALLRNTFQRAR--LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAA  435 (611)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~a~--~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~  435 (611)
                      ++..+  .......+........  ...+.|++|||+|.+.              ....+.|+..++  .+..++.+|++
T Consensus        77 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~--------------~~~~~~L~~~le--~~~~~~~~i~~  138 (319)
T 2chq_A           77 SDERG--IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALT--------------ADAQAALRRTME--MYSKSCRFILS  138 (319)
T ss_dssp             TSTTC--TTTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSC--------------HHHHHTTGGGTS--SSSSSEEEEEE
T ss_pred             ccccC--hHHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCC--------------HHHHHHHHHHHH--hcCCCCeEEEE
Confidence            65432  1111122222211100  1346799999999873              244577777777  35567889999


Q ss_pred             cCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHh
Q 007255          436 TNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALRE  514 (611)
Q Consensus       436 tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~  514 (611)
                      ||.++.+++++.+  |+. .+.|++|+.+++.+++...++..+.. ++..++.++..+.| +.+.+.+.++.+...    
T Consensus       139 ~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G-~~r~~~~~l~~~~~~----  210 (319)
T 2chq_A          139 CNYVSRIIEPIQS--RCA-VFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGG-DFRKAINALQGAAAI----  210 (319)
T ss_dssp             ESCGGGSCHHHHT--TCE-EEECCCCCHHHHHHHHHHHHHTTCCCBCHHHHHHHHHTTTT-CHHHHHHHHHHHHHS----
T ss_pred             eCChhhcchHHHh--hCe-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHc----
Confidence            9999999999998  887 89999999999999999877665543 34457788887766 556666666544321    


Q ss_pred             hcccccccHHHHHHHH
Q 007255          515 DISATAVRNRHFQTVK  530 (611)
Q Consensus       515 ~~~~~~i~~~~~~~~l  530 (611)
                         ...++.+++..++
T Consensus       211 ---~~~i~~~~v~~~~  223 (319)
T 2chq_A          211 ---GEVVDADTIYQIT  223 (319)
T ss_dssp             ---SSCBCHHHHHHHT
T ss_pred             ---CCCCCHHHHHHHH
Confidence               2346666665554

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=99.66  E-value=6.1e-16  Score=159.96  Aligned_cols=216  Identities=23%  Similarity=0.286  Sum_probs=134.7

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEe----ecchhh
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS----LSGAEL  360 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~----~~~~~~  360 (611)
                      +..+|++++|++.+++.+......             ....++||+||||||||++|+++|+.++.....    +++...
T Consensus        19 ~~~~f~~i~G~~~~~~~l~~~~~~-------------~~~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~   85 (350)
T 1g8p_A           19 PVFPFSAIVGQEDMKLALLLTAVD-------------PGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNV   85 (350)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHHC-------------GGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSG
T ss_pred             CCCCchhccChHHHHHHHHHHhhC-------------CCCceEEEECCCCccHHHHHHHHHHhCcccccccccccccccc
Confidence            567899999999988775544332             123469999999999999999999988631100    011000


Q ss_pred             ---------------------ccccccchHHHH------HHHHHHH---------HhcCCcEEEEcccccccccCCCCCC
Q 007255          361 ---------------------YSMYVGESEALL------RNTFQRA---------RLAAPSIIFFDEADVVGAKRGGSSS  404 (611)
Q Consensus       361 ---------------------~~~~~g~~~~~~------~~~~~~a---------~~~~p~il~iDeid~l~~~~~~~~~  404 (611)
                                           .....+.++..+      ...+...         ....++||||||+|.+.        
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~--------  157 (350)
T 1g8p_A           86 EMIPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLE--------  157 (350)
T ss_dssp             GGSCTTCCCSCCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSC--------
T ss_pred             ccccchhhhhccccccCCCcccccCCCcchhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCC--------
Confidence                                 000011111110      1111111         11246799999999872        


Q ss_pred             CCcchhHHHHHHHHHHhcCC----C-------CCCCeEEEEecCCCc-ccchhccCCCCccceeecCCC-CHHHHHHHHH
Q 007255          405 TSITVGERLLSTLLTEMDGL----E-------QAKGILVLAATNRPH-AIDAALMRPGRFDLVLYVPPP-DLEARHEILR  471 (611)
Q Consensus       405 ~~~~~~~~~~~~ll~~l~~~----~-------~~~~~~vI~~tn~~~-~ld~al~r~gRf~~~i~~~~p-~~~~r~~il~  471 (611)
                            ....+.|+..|+..    .       ...++++|+|||..+ .+++++++  ||+..+.++.| +.+.+.+|++
T Consensus       158 ------~~~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~--R~~~~~~l~~~~~~~~~~~il~  229 (350)
T 1g8p_A          158 ------DHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVETRVEVIR  229 (350)
T ss_dssp             ------HHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHHHHHHHHH
T ss_pred             ------HHHHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCCCCCCHHHHh--hcceEEEcCCCCcHHHHHHHHH
Confidence                  34566777766531    1       123789999999744 89999999  99988999998 6777878886


Q ss_pred             HHh-------------------------------cCCCCCCcccHHHHHHhCCC---CCHHHHHHHHHHHHHHHHHhhcc
Q 007255          472 VHT-------------------------------RNMKVGDDVDLRSIAEETEL---FTGAELEGLCREAGIVALREDIS  517 (611)
Q Consensus       472 ~~~-------------------------------~~~~~~~~~~~~~la~~~~g---~s~~~i~~~~~~a~~~a~~~~~~  517 (611)
                      ..+                               .++. .++..++.++..+.+   -+.+.+.++++.|...|..+.  
T Consensus       230 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~-ls~~~~~~l~~~~~~~~~~~~R~~~~ll~~a~~~A~~~~--  306 (350)
T 1g8p_A          230 RRDTYDADPKAFLEEWRPKDMDIRNQILEARERLPKVE-APNTALYDCAALCIALGSDGLRGELTLLRSARALAALEG--  306 (350)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHGGGCB-CCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTT--
T ss_pred             HHHhcccCchhhccccccchHHHHHHHHHHHHhCCCCC-CCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcC--
Confidence            521                               1121 233334555554432   256888888888877776543  


Q ss_pred             cccccHHHHHHHHhh
Q 007255          518 ATAVRNRHFQTVKDS  532 (611)
Q Consensus       518 ~~~i~~~~~~~~l~~  532 (611)
                      ...++..|+..++..
T Consensus       307 ~~~v~~~~v~~a~~~  321 (350)
T 1g8p_A          307 ATAVGRDHLKRVATM  321 (350)
T ss_dssp             CSBCCHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHH
Confidence            234788888777654

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=99.66  E-value=2.4e-15  Score=157.14  Aligned_cols=244  Identities=16%  Similarity=0.189  Sum_probs=148.4

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHH-----------------hcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQ-----------------KLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~-----------------~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      .|+|++++++.|..++...+.......                 ......+.++||+||||||||++++++|+.++.+++
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~  101 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIA  101 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEE
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            489999999999988854332222100                 112235678999999999999999999999999999


Q ss_pred             EEccccccc-ccccch-HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC----chhhHHHHHHHHHHHhcCCC-
Q 007255           83 VISPHSVHK-AHVGES-EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKP-  155 (611)
Q Consensus        83 ~v~~~~~~~-~~~~~~-~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~----~~~~~~~~~~ll~~l~~~~~-  155 (611)
                      .+++..+.. .+.|.. ...+...+...........++||||||+|.+...+++.    ......++..|+..++.... 
T Consensus       102 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~  181 (376)
T 1um8_A          102 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVN  181 (376)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC
T ss_pred             EecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhhcccee
Confidence            999887652 333332 33444554433221122357899999999998753211    11122478899999985310 


Q ss_pred             ---CC-----------CCCCcEEEEEeecC-----------------------------------------cccccHHhh
Q 007255          156 ---SK-----------TSVPHVVVVASTNR-----------------------------------------VDAIDPALR  180 (611)
Q Consensus       156 ---~~-----------~~~~~v~ii~ttn~-----------------------------------------~~~l~~~l~  180 (611)
                         ..           ....++++|+++|.                                         ...+.|++.
T Consensus       182 ~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~p~l~  261 (376)
T 1um8_A          182 IPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELI  261 (376)
T ss_dssp             ---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHH
T ss_pred             cccccccccCCcceEEEecCCeEEEecCCHHHHHHHHHHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcCCChHHh
Confidence               00           00134677777762                                         113567787


Q ss_pred             ccCCcceEEEccCCCHHHHHHHHHH----hhc-------CCC--CC-CcccHHHHHHhcc--CCccccHHHHHHHHHHHH
Q 007255          181 RSGRFDAEVEVTVPTAEERFEILKL----YTK-------KVP--LD-ANVDLEAIATSCN--GYVGADLEALCREATMSA  244 (611)
Q Consensus       181 ~~~Rf~~~i~~~~p~~~~r~~Il~~----~~~-------~~~--~~-~~~~~~~la~~~~--g~~~~dl~~l~~~a~~~a  244 (611)
                      +  ||+..+.|++++.++...|+..    ++.       ...  +. .+..+..++..+.  ....+.+.+++..++..+
T Consensus       262 ~--R~~~~i~~~~l~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~le~~~~~~  339 (376)
T 1um8_A          262 G--RLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDFCLDI  339 (376)
T ss_dssp             T--TCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHHH
T ss_pred             c--CCCceeeccCCCHHHHHHHHhhhHHHHHHHHHHHHhhcCceEEECHHHHHHHHHHhcccccCcHHHHHHHHHHHHHH
Confidence            7  9988899999999999999962    111       111  11 1223566666543  356799999999988877


Q ss_pred             hhhcccccccccccchhHHHHHH
Q 007255          245 VKRSSDANECAGVLSVTMEDWRH  267 (611)
Q Consensus       245 ~~r~~~~~~~~~~~~v~~ed~~~  267 (611)
                      +.+....  ......++.+++..
T Consensus       340 ~~~~~~~--~~~~~~i~~~~v~~  360 (376)
T 1um8_A          340 MFDLPKL--KGSEVRITKDCVLK  360 (376)
T ss_dssp             HHTGGGG--TTSEEEECHHHHTT
T ss_pred             HhhccCC--CCCEEEEeHHHhcC
Confidence            6654321  12334566666543

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.66  E-value=1e-15  Score=155.53  Aligned_cols=210  Identities=16%  Similarity=0.231  Sum_probs=141.5

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccc-
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV-   94 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~-   94 (611)
                      +.++|++.+++.+...+........    ...++..+++|+||||||||++++++++.+   +.+++.++++.+..... 
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~----~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~   92 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLK----DPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAV   92 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCS----CTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCC----CCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccH
Confidence            4688999999999998865321100    011233589999999999999999999998   45688998876543210 


Q ss_pred             ----cch----HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC-----CCCC
Q 007255           95 ----GES----EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK-----TSVP  161 (611)
Q Consensus        95 ----~~~----~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-----~~~~  161 (611)
                          |..    .......+..+..   ...++||||||+|.+.+          ..+..|+..++......     ....
T Consensus        93 ~~l~g~~~~~~~~~~~~~~~~~~~---~~~~~vl~lDEi~~l~~----------~~~~~Ll~~le~~~~~~~~~~~~~~~  159 (311)
T 4fcw_A           93 SRLIGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDAIEKAHP----------DVFNILLQMLDDGRLTDSHGRTVDFR  159 (311)
T ss_dssp             HHHHCCCTTSTTTTTCCHHHHHHH---HCSSEEEEEETGGGSCH----------HHHHHHHHHHHHSEEECTTSCEEECT
T ss_pred             HHhcCCCCccccccccchHHHHHH---hCCCeEEEEeChhhcCH----------HHHHHHHHHHhcCEEEcCCCCEEECC
Confidence                000    0000011222211   12368999999998854          67888899888643211     1113


Q ss_pred             cEEEEEeecC--------------------------cccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCC-----
Q 007255          162 HVVVVASTNR--------------------------VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV-----  210 (611)
Q Consensus       162 ~v~ii~ttn~--------------------------~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~-----  210 (611)
                      ++++|+|||.                          ...+++++.+  ||+..+.+++|+.+++..|++.++...     
T Consensus       160 ~~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~--R~~~~~~~~p~~~~~~~~i~~~~l~~~~~~~~  237 (311)
T 4fcw_A          160 NTVIIMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQMSYLRARLA  237 (311)
T ss_dssp             TEEEEEEESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHTHHHHHHHH
T ss_pred             CcEEEEecccCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHh--cCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            5779999998                          4578889987  999899999999999999999876542     


Q ss_pred             --CCC---CcccHHHHHHhcc--CCccccHHHHHHHHHHHHhhh
Q 007255          211 --PLD---ANVDLEAIATSCN--GYVGADLEALCREATMSAVKR  247 (611)
Q Consensus       211 --~~~---~~~~~~~la~~~~--g~~~~dl~~l~~~a~~~a~~r  247 (611)
                        ...   .+..++.++...-  ..+.+++.++++.++..+..+
T Consensus       238 ~~~~~~~~~~~~~~~l~~~~~~~~gn~R~L~~~i~~~~~~~~~~  281 (311)
T 4fcw_A          238 EKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQ  281 (311)
T ss_dssp             TTTCEEEECHHHHHHHHHHSCBTTTBTTTHHHHHHHHTHHHHHH
T ss_pred             hCCcEEEeCHHHHHHHHHhCCCccCCchhHHHHHHHHHHHHHHH
Confidence              111   1223566666544  567899999999888766554

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.65  E-value=9.1e-15  Score=140.37  Aligned_cols=187  Identities=19%  Similarity=0.208  Sum_probs=129.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVH   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~   90 (611)
                      ..+++++|.++.++.|.+++...             .+.+++|+||||||||++++.+++.+     ...++.++++...
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~-------------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~   80 (226)
T 2chg_A           14 RTLDEVVGQDEVIQRLKGYVERK-------------NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDER   80 (226)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTT-------------CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTT
T ss_pred             CCHHHHcCcHHHHHHHHHHHhCC-------------CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEecccccc
Confidence            45789999999999999887531             23459999999999999999999986     3457777765432


Q ss_pred             cccccchHHHHHHHHHHHHhh--hhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEe
Q 007255           91 KAHVGESEKALREAFSQASSH--ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~~~--~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t  168 (611)
                      .      ...+...+......  ....++.+|+|||+|.+.+          ..+..++..++...      .++.+|++
T Consensus        81 ~------~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~----------~~~~~l~~~l~~~~------~~~~~i~~  138 (226)
T 2chg_A           81 G------IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTA----------DAQAALRRTMEMYS------KSCRFILS  138 (226)
T ss_dssp             C------HHHHHHHHHHHHTSCCSTTCSCEEEEEETGGGSCH----------HHHHHHHHHHHHTT------TTEEEEEE
T ss_pred             C------hHHHHHHHHHHhcccCCCccCceEEEEeChhhcCH----------HHHHHHHHHHHhcC------CCCeEEEE
Confidence            1      12222222222211  1124688999999998854          34566777777632      25788889


Q ss_pred             ecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHHHHHHH
Q 007255          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       169 tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                      +|.+..+++++.+  ||. .+.+++|+.++..++++.++...+.. .+..+..++..+.|. .+.+.++++.+.
T Consensus       139 ~~~~~~~~~~l~~--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~-~r~l~~~l~~~~  208 (226)
T 2chg_A          139 CNYVSRIIEPIQS--RCA-VFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGD-FRKAINALQGAA  208 (226)
T ss_dssp             ESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTC-HHHHHHHHHHHH
T ss_pred             eCChhhcCHHHHH--hCc-eeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHHH
Confidence            9999999999998  886 89999999999999999887644332 223466777766553 333444444443

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.65  E-value=1.9e-15  Score=154.23  Aligned_cols=203  Identities=19%  Similarity=0.149  Sum_probs=146.5

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSG  357 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~  357 (611)
                      ...+..|++++|++..++.+.+.+..           + ..++ ++|+||||+|||++|+++|+.+     +..++.+++
T Consensus        14 ~~~p~~~~~~~g~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   80 (323)
T 1sxj_B           14 KYRPQVLSDIVGNKETIDRLQQIAKD-----------G-NMPH-MIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNA   80 (323)
T ss_dssp             HTCCSSGGGCCSCTHHHHHHHHHHHS-----------C-CCCC-EEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECT
T ss_pred             hcCCCCHHHHHCCHHHHHHHHHHHHc-----------C-CCCe-EEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecC
Confidence            34566799999999999999988763           2 3334 9999999999999999999986     345777776


Q ss_pred             hhhccccccchHHHHHHHHHHHH-------hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCe
Q 007255          358 AELYSMYVGESEALLRNTFQRAR-------LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGI  430 (611)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~a~-------~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  430 (611)
                      ++..+      ...++.++....       ...+.|++|||+|.+.              ....+.|++.++  .+..++
T Consensus        81 ~~~~~------~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~--------------~~~~~~L~~~le--~~~~~~  138 (323)
T 1sxj_B           81 SDDRG------IDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMT--------------AGAQQALRRTME--LYSNST  138 (323)
T ss_dssp             TSCCS------HHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSC--------------HHHHHTTHHHHH--HTTTTE
T ss_pred             ccccC------hHHHHHHHHHHHhccccCCCCCceEEEEECcccCC--------------HHHHHHHHHHHh--ccCCCc
Confidence            54321      234455555443       2237799999999873              234567777776  355678


Q ss_pred             EEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHH
Q 007255          431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGI  509 (611)
Q Consensus       431 ~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~  509 (611)
                      .+|++||.++.+++++.+  |+. .+.|++|+.+++.++++..+...+.. ++..+..+++.+.| +.+.+.+++..+..
T Consensus       139 ~~il~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G-~~r~a~~~l~~~~~  214 (323)
T 1sxj_B          139 RFAFACNQSNKIIEPLQS--QCA-ILRYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEG-DMRQAINNLQSTVA  214 (323)
T ss_dssp             EEEEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTT-CHHHHHHHHHHHHH
T ss_pred             eEEEEeCChhhchhHHHh--hce-EEeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHh
Confidence            888899999999999998  887 89999999999999999776543332 34457788888877 56666666665542


Q ss_pred             HHHHhhcccccccHHHHHHHHh
Q 007255          510 VALREDISATAVRNRHFQTVKD  531 (611)
Q Consensus       510 ~a~~~~~~~~~i~~~~~~~~l~  531 (611)
                      .       ...++.+++..++.
T Consensus       215 ~-------~~~i~~~~v~~~~~  229 (323)
T 1sxj_B          215 G-------HGLVNADNVFKIVD  229 (323)
T ss_dssp             H-------HSSBCHHHHHHHHT
T ss_pred             c-------CCCcCHHHHHHHHC
Confidence            1       13467777666654

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.65  E-value=8.1e-15  Score=142.72  Aligned_cols=188  Identities=18%  Similarity=0.230  Sum_probs=134.4

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcE--------------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL--------------   81 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~--------------   81 (611)
                      ..+++++|.+..++.|.+.+...            ..+..++|+||||||||++++.+++.++...              
T Consensus        20 ~~~~~~~g~~~~~~~l~~~l~~~------------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (250)
T 1njg_A           20 QTFADVVGQEHVLTALANGLSLG------------RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCR   87 (250)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHT------------CCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHH
T ss_pred             ccHHHHhCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHH
Confidence            56789999999999999887541            2346899999999999999999999875421              


Q ss_pred             ----------EEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh
Q 007255           82 ----------TVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (611)
Q Consensus        82 ----------~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~  151 (611)
                                +.++...      ......+..++..........++.+|+|||+|.+.+          ..+..++..++
T Consensus        88 ~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~----------~~~~~l~~~l~  151 (250)
T 1njg_A           88 EIEQGRFVDLIEIDAAS------RTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSR----------HSFNALLKTLE  151 (250)
T ss_dssp             HHHTTCCSSEEEEETTC------GGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCH----------HHHHHHHHHHH
T ss_pred             HHhccCCcceEEecCcc------cccHHHHHHHHHHhhhchhcCCceEEEEECcccccH----------HHHHHHHHHHh
Confidence                      1111110      112233445554433322345678999999998743          45677778887


Q ss_pred             cCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCcc
Q 007255          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVG  230 (611)
Q Consensus       152 ~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~  230 (611)
                      ..      ..++.+|++|+.+..+++.+.+  |+ ..+.+++|+.++..++++.++...... .+..++.++..+.| +.
T Consensus       152 ~~------~~~~~~i~~t~~~~~~~~~l~~--r~-~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G-~~  221 (250)
T 1njg_A          152 EP------PEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEG-SL  221 (250)
T ss_dssp             SC------CTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHTT-CH
T ss_pred             cC------CCceEEEEEeCChHhCCHHHHH--Hh-hhccCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCC-CH
Confidence            53      2357888889988899999988  76 589999999999999999888654433 22347788888877 56


Q ss_pred             ccHHHHHHHHH
Q 007255          231 ADLEALCREAT  241 (611)
Q Consensus       231 ~dl~~l~~~a~  241 (611)
                      +.+.++++.+.
T Consensus       222 ~~~~~~~~~~~  232 (250)
T 1njg_A          222 RDALSLTDQAI  232 (250)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77777777664

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=99.64  E-value=1.5e-15  Score=158.34  Aligned_cols=189  Identities=17%  Similarity=0.253  Sum_probs=139.2

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc------------
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS------------  351 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------------  351 (611)
                      +.+.+|++++|++...+.+...+..           + ..++.+||+||||||||++|+++|+.+++.            
T Consensus        10 ~rp~~~~~~vg~~~~~~~L~~~l~~-----------~-~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~   77 (373)
T 1jr3_A           10 WRPQTFADVVGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCD   77 (373)
T ss_dssp             TCCCSTTTSCSCHHHHHHHHHHHHH-----------T-CCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSH
T ss_pred             hCCCchhhccCcHHHHHHHHHHHHh-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccH
Confidence            3455789999999999999988763           1 334678999999999999999999998653            


Q ss_pred             ------------EEeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHH
Q 007255          352 ------------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLS  415 (611)
Q Consensus       352 ------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~  415 (611)
                                  ++.++++.-      .....++.++..+..    ..+.|++|||+|.+.              ....+
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~--------------~~~~~  137 (373)
T 1jr3_A           78 NCREIEQGRFVDLIEIDAASR------TKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLS--------------RHSFN  137 (373)
T ss_dssp             HHHHHHTSCCSSCEEEETTCS------CCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSC--------------HHHHH
T ss_pred             HHHHHhccCCCceEEeccccc------CCHHHHHHHHHHHhhccccCCeEEEEEECcchhc--------------HHHHH
Confidence                        222222110      011224455555432    236799999999872              34567


Q ss_pred             HHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCC
Q 007255          416 TLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETEL  494 (611)
Q Consensus       416 ~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g  494 (611)
                      .|++.++  ++..++++|++|+.++.+++++.+  |+ ..+.|++|+.++...+++..++..++. ++..+..+++.+.|
T Consensus       138 ~Ll~~le--~~~~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~l~~~~~~~~l~~~~~~~~~~~~~~a~~~l~~~~~G  212 (373)
T 1jr3_A          138 ALLKTLE--EPPEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEG  212 (373)
T ss_dssp             HHHHHHH--SCCSSEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHSSS
T ss_pred             HHHHHHh--cCCCceEEEEEeCChHhCcHHHHh--he-eEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHCCC
Confidence            8888887  356788999999999999999988  87 489999999999999999777554433 33447889999988


Q ss_pred             CCHHHHHHHHHHHHHH
Q 007255          495 FTGAELEGLCREAGIV  510 (611)
Q Consensus       495 ~s~~~i~~~~~~a~~~  510 (611)
                       +.+++.+++..+...
T Consensus       213 -~~r~~~~~l~~~~~~  227 (373)
T 1jr3_A          213 -SLRDALSLTDQAIAS  227 (373)
T ss_dssp             -CHHHHHHHHHHHHHH
T ss_pred             -CHHHHHHHHHHHHHh
Confidence             788888888777543

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.64  E-value=1.6e-15  Score=155.69  Aligned_cols=209  Identities=19%  Similarity=0.150  Sum_probs=137.5

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecch------hhc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA------ELY  361 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~------~~~  361 (611)
                      .+++++|++.+++.+...+..               .+++||+||||||||++|+++|+.++.+++.+++.      ++.
T Consensus        25 ~~~~i~g~~~~~~~l~~~l~~---------------~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l~   89 (331)
T 2r44_A           25 VGKVVVGQKYMINRLLIGICT---------------GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDLI   89 (331)
T ss_dssp             HTTTCCSCHHHHHHHHHHHHH---------------TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHHH
T ss_pred             hccceeCcHHHHHHHHHHHHc---------------CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhcC
Confidence            356788999999888777653               25799999999999999999999999999887762      222


Q ss_pred             cccccch-HHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC---------CCCCCeE
Q 007255          362 SMYVGES-EALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL---------EQAKGIL  431 (611)
Q Consensus       362 ~~~~g~~-~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~---------~~~~~~~  431 (611)
                      +...... ....  .+.. .....+|+||||+|.+.              ....+.|+..|+..         ..+.+++
T Consensus        90 g~~~~~~~~~~~--~~~~-g~l~~~vl~iDEi~~~~--------------~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~  152 (331)
T 2r44_A           90 GTMIYNQHKGNF--EVKK-GPVFSNFILADEVNRSP--------------AKVQSALLECMQEKQVTIGDTTYPLDNPFL  152 (331)
T ss_dssp             EEEEEETTTTEE--EEEE-CTTCSSEEEEETGGGSC--------------HHHHHHHHHHHHHSEEEETTEEEECCSSCE
T ss_pred             CceeecCCCCce--Eecc-CcccccEEEEEccccCC--------------HHHHHHHHHHHhcCceeeCCEEEECCCCEE
Confidence            2111000 0000  0000 00013699999999862              34567777777531         1244678


Q ss_pred             EEEecCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-----------------------Ccc
Q 007255          432 VLAATNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-----------------------DDV  483 (611)
Q Consensus       432 vI~~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-----------------------~~~  483 (611)
                      +|+|+|..+     .+++++++  ||+..+.++.|+.+++.+|++.........                       ++.
T Consensus       153 viat~np~~~~~~~~l~~~l~~--Rf~~~i~i~~p~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~v~~~~~  230 (331)
T 2r44_A          153 VLATQNPVEQEGTYPLPEAQVD--RFMMKIHLTYLDKESELEVMRRVSNMNFNYQVQKIVSKNDVLEIRNEINKVTISES  230 (331)
T ss_dssp             EEEEECTTCCSCCCCCCHHHHT--TSSEEEECCCCCHHHHHHHHHHHHCTTCCCCCCCCSCHHHHHHHHHHHHTCBCCHH
T ss_pred             EEEecCCCcccCcccCCHHHHh--heeEEEEcCCCCHHHHHHHHHhccccCcchhccccCCHHHHHHHHHHhccCCCCHH
Confidence            888888543     38999999  999889999999999999999876543211                       111


Q ss_pred             cHHHHHHhC-------------------CCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhh
Q 007255          484 DLRSIAEET-------------------ELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDS  532 (611)
Q Consensus       484 ~~~~la~~~-------------------~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~  532 (611)
                      .++.++...                   .|.|.+.+..+++.|...|....  ...++.+|+..++..
T Consensus       231 ~~~~i~~~~~~~r~~~~~~~~~~~~~~~~~~s~R~~~~ll~~a~a~A~l~g--~~~v~~~dv~~~~~~  296 (331)
T 2r44_A          231 LEKYIIELVFATRFPAEYGLEAEASYILYGASTRAAINLNRVAKAMAFFNN--RDYVLPEDIKEVAYD  296 (331)
T ss_dssp             HHHHHHHHHHHHHSGGGGTCHHHHHHEEECCCHHHHHHHHHHHHHHHHHTT--CSBCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccccccccccccCcChhHHHHHHHHHHHHHHHcC--CCCCCHHHHHHHHHH
Confidence            133333221                   14578888888777766665432  234777777776653

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.64  E-value=1.4e-15  Score=159.23  Aligned_cols=212  Identities=19%  Similarity=0.183  Sum_probs=148.8

Q ss_pred             cccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-----------CCcEEeecc
Q 007255          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----------EASFFSLSG  357 (611)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-----------~~~~~~~~~  357 (611)
                      .++++|.+...+.+.+.+...+.         ...+++++|+||||||||++|+++++++           +.+++.+++
T Consensus        19 p~~l~gr~~~~~~l~~~l~~~~~---------~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~   89 (384)
T 2qby_B           19 FKEIPFREDILRDAAIAIRYFVK---------NEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNC   89 (384)
T ss_dssp             CSSCTTCHHHHHHHHHHHHHHHT---------TCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHc---------CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEEC
Confidence            37899999999988877753221         1345689999999999999999999988           899999987


Q ss_pred             hhhc-cc-----------------cccc-hHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHH-HHHH
Q 007255          358 AELY-SM-----------------YVGE-SEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERL-LSTL  417 (611)
Q Consensus       358 ~~~~-~~-----------------~~g~-~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~-~~~l  417 (611)
                      .... ..                 ..+. ....+..++..+....+ ||+|||+|.+....          .... +..|
T Consensus        90 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~-vlilDEi~~l~~~~----------~~~~~l~~l  158 (384)
T 2qby_B           90 REVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRA-IIYLDEVDTLVKRR----------GGDIVLYQL  158 (384)
T ss_dssp             HHHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCE-EEEEETTHHHHHST----------TSHHHHHHH
T ss_pred             ccCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCC-EEEEECHHHhccCC----------CCceeHHHH
Confidence            6643 11                 1111 12334455544443344 99999999985321          0122 3333


Q ss_pred             HHHhcCCCCCCCeEEEEecCCC---cccchhccCCCCccceeecCCCCHHHHHHHHHHHhcC-C--CCCCcccHHHHHHh
Q 007255          418 LTEMDGLEQAKGILVLAATNRP---HAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRN-M--KVGDDVDLRSIAEE  491 (611)
Q Consensus       418 l~~l~~~~~~~~~~vI~~tn~~---~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~-~--~~~~~~~~~~la~~  491 (611)
                      +...      .++.+|++||.+   +.+++++.+  ||...+.|++|+.+++.+|++..+.. +  ...++..++.+++.
T Consensus       159 ~~~~------~~~~iI~~t~~~~~~~~l~~~l~s--r~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~  230 (384)
T 2qby_B          159 LRSD------ANISVIMISNDINVRDYMEPRVLS--SLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAI  230 (384)
T ss_dssp             HTSS------SCEEEEEECSSTTTTTTSCHHHHH--TCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHH
T ss_pred             hcCC------cceEEEEEECCCchHhhhCHHHHh--cCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHH
Confidence            3221      678999999987   678999988  88779999999999999999977652 2  12234456777777


Q ss_pred             CC---CCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhc
Q 007255          492 TE---LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       492 ~~---g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~  533 (611)
                      +.   | +.+.+.++|+.|...+.    ....++.+++..++...
T Consensus       231 ~~~~~G-~~r~a~~~l~~a~~~a~----~~~~i~~~~v~~~~~~~  270 (384)
T 2qby_B          231 SAKEHG-DARKAVNLLFRAAQLAS----GGGIIRKEHVDKAIVDY  270 (384)
T ss_dssp             HHTTCC-CHHHHHHHHHHHHHHTT----SSSCCCHHHHHHHHHHH
T ss_pred             HHhccC-CHHHHHHHHHHHHHHhc----CCCccCHHHHHHHHHHH
Confidence            76   5 56677788888776664    34568888888777655

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.64  E-value=5.4e-16  Score=145.35  Aligned_cols=159  Identities=21%  Similarity=0.339  Sum_probs=113.2

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~   85 (611)
                      ..+++++|.++.++.+.+.+..             ..+.+++|+||||||||++++++++.+          +.+++.++
T Consensus        19 ~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (195)
T 1jbk_A           19 GKLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALD   85 (195)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEEC
T ss_pred             ccccccccchHHHHHHHHHHhc-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEee
Confidence            4578899999999998887632             245789999999999999999999987          67888888


Q ss_pred             ccccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        86 ~~~~~--~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      +..+.  ....+.....+..++.....   ..+++||+|||+|.+.+......  ...+...+...++..        ++
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~vl~iDe~~~l~~~~~~~~--~~~~~~~l~~~~~~~--------~~  152 (195)
T 1jbk_A           86 MGALVAGAKYRGEFEERLKGVLNDLAK---QEGNVILFIDELHTMVGAGKADG--AMDAGNMLKPALARG--------EL  152 (195)
T ss_dssp             HHHHHTTTCSHHHHHHHHHHHHHHHHH---STTTEEEEEETGGGGTT--------CCCCHHHHHHHHHTT--------SC
T ss_pred             HHHHhccCCccccHHHHHHHHHHHHhh---cCCCeEEEEeCHHHHhccCcccc--hHHHHHHHHHhhccC--------Ce
Confidence            77654  23334445556666655432   34578999999999975432111  112234444444431        35


Q ss_pred             EEEEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHH
Q 007255          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEIL  203 (611)
Q Consensus       164 ~ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il  203 (611)
                      .+|+++|.+.     .+++++.+  ||. .+.+++|+.+++.+|+
T Consensus       153 ~~i~~~~~~~~~~~~~~~~~l~~--r~~-~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          153 HCVGATTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             CEEEEECHHHHHHHTTTCHHHHT--TEE-EEECCCCCHHHHHTTC
T ss_pred             EEEEeCCHHHHHHHHhcCHHHHH--Hhc-eeecCCCCHHHHHHHh
Confidence            6788888765     68999998  997 7999999999998875

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=99.63  E-value=2.9e-15  Score=153.19  Aligned_cols=206  Identities=21%  Similarity=0.237  Sum_probs=142.6

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC-----cEEeecc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-----SFFSLSG  357 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~-----~~~~~~~  357 (611)
                      ...+.+|++++|++.+++.+...+..           + .. .++||+||||||||++|+++|+.+..     .++.+++
T Consensus        18 k~~p~~~~~~~g~~~~~~~l~~~l~~-----------~-~~-~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~   84 (327)
T 1iqp_A           18 KYRPQRLDDIVGQEHIVKRLKHYVKT-----------G-SM-PHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNA   84 (327)
T ss_dssp             HTCCCSTTTCCSCHHHHHHHHHHHHH-----------T-CC-CEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEET
T ss_pred             ccCCCCHHHhhCCHHHHHHHHHHHHc-----------C-CC-CeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeec
Confidence            35567899999999999999988763           2 22 24999999999999999999998742     3666666


Q ss_pred             hhhccccccchHHHHHHHHHHH--HhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEe
Q 007255          358 AELYSMYVGESEALLRNTFQRA--RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAA  435 (611)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~a--~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~  435 (611)
                      ++..+.  ......+.......  ....+.|++|||+|.+.              ....+.|+..++  .+..++.+|++
T Consensus        85 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~--------------~~~~~~L~~~le--~~~~~~~~i~~  146 (327)
T 1iqp_A           85 SDERGI--NVIREKVKEFARTKPIGGASFKIIFLDEADALT--------------QDAQQALRRTME--MFSSNVRFILS  146 (327)
T ss_dssp             TCHHHH--HTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSC--------------HHHHHHHHHHHH--HTTTTEEEEEE
T ss_pred             cccCch--HHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCC--------------HHHHHHHHHHHH--hcCCCCeEEEE
Confidence            543220  11111121111000  01346799999999872              345677888887  35567888899


Q ss_pred             cCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHh
Q 007255          436 TNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALRE  514 (611)
Q Consensus       436 tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~  514 (611)
                      ||.++.+++++.+  |+. .+.|++|+.++...+++..+...+.. ++..++.++..+.| +.+.+.++++.+...    
T Consensus       147 ~~~~~~l~~~l~s--r~~-~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~~~----  218 (327)
T 1iqp_A          147 CNYSSKIIEPIQS--RCA-IFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEG-DMRRAINILQAAAAL----  218 (327)
T ss_dssp             ESCGGGSCHHHHH--TEE-EEECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTT-CHHHHHHHHHHHHTT----
T ss_pred             eCCccccCHHHHh--hCc-EEEecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHCCC-CHHHHHHHHHHHHhc----
Confidence            9999999999988  887 89999999999999999777655442 34457788888877 666666666654421    


Q ss_pred             hcccccccHHHHHHHH
Q 007255          515 DISATAVRNRHFQTVK  530 (611)
Q Consensus       515 ~~~~~~i~~~~~~~~l  530 (611)
                         ...++.+++....
T Consensus       219 ---~~~i~~~~v~~~~  231 (327)
T 1iqp_A          219 ---DKKITDENVFMVA  231 (327)
T ss_dssp             ---CSEECHHHHHHHT
T ss_pred             ---CCCCCHHHHHHHH
Confidence               1245655555444

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.62  E-value=1.3e-15  Score=152.94  Aligned_cols=159  Identities=8%  Similarity=0.059  Sum_probs=112.0

Q ss_pred             ccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEeecchhhc
Q 007255          292 IGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSGAELY  361 (611)
Q Consensus       292 i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~~~~~~~  361 (611)
                      +.|.++-.+.+...+...+         ....+.+++|+||||||||++++++++++          +..++.+++..+.
T Consensus        22 L~~Re~E~~~i~~~L~~~i---------~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~   92 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSL---------MSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELA   92 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHH---------HTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC
T ss_pred             cCCHHHHHHHHHHHHHHHh---------cCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccC
Confidence            4455555555554444221         12456789999999999999999999998          3567888876543


Q ss_pred             cc----------c------ccchHHHHHHHHHHH--HhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcC
Q 007255          362 SM----------Y------VGESEALLRNTFQRA--RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (611)
Q Consensus       362 ~~----------~------~g~~~~~~~~~~~~a--~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~  423 (611)
                      +.          .      .+.+...+...|...  ....+.|+++||+|.+.             ..+++..|+.... 
T Consensus        93 t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~-------------~q~~L~~l~~~~~-  158 (318)
T 3te6_A           93 GMDALYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL-------------SEKILQYFEKWIS-  158 (318)
T ss_dssp             --HHHHHHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC-------------CTHHHHHHHHHHH-
T ss_pred             CHHHHHHHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh-------------cchHHHHHHhccc-
Confidence            32          1      233556677788764  34567899999999985             1245555555433 


Q ss_pred             CCCCCCeEEEEecCCCcc----cchhccCCCCcc-ceeecCCCCHHHHHHHHHHHhcC
Q 007255          424 LEQAKGILVLAATNRPHA----IDAALMRPGRFD-LVLYVPPPDLEARHEILRVHTRN  476 (611)
Q Consensus       424 ~~~~~~~~vI~~tn~~~~----ld~al~r~gRf~-~~i~~~~p~~~~r~~il~~~~~~  476 (611)
                       ....++++|+++|..+.    +++++.+  ||. ..|.|++++.++..+|++..++.
T Consensus       159 -~~~s~~~vI~i~n~~d~~~~~L~~~v~S--R~~~~~i~F~pYt~~el~~Il~~Rl~~  213 (318)
T 3te6_A          159 -SKNSKLSIICVGGHNVTIREQINIMPSL--KAHFTEIKLNKVDKNELQQMIITRLKS  213 (318)
T ss_dssp             -CSSCCEEEEEECCSSCCCHHHHHTCHHH--HTTEEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             -ccCCcEEEEEEecCcccchhhcchhhhc--cCCceEEEeCCCCHHHHHHHHHHHHHh
Confidence             35568999999998764    5566666  886 68999999999999999977654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.62  E-value=1.1e-15  Score=142.61  Aligned_cols=152  Identities=21%  Similarity=0.267  Sum_probs=114.1

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEee
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSL  355 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~  355 (611)
                      +..|++++|.+...+.+.+.+..             ..+.+++|+||||||||++|++++..+          +.+++.+
T Consensus        18 ~~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~   84 (187)
T 2p65_A           18 AGKLDPVIGRDTEIRRAIQILSR-------------RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSL   84 (187)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEE
T ss_pred             ccccchhhcchHHHHHHHHHHhC-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEE
Confidence            45688999999888888877653             335679999999999999999999987          7888888


Q ss_pred             cchhhcc--ccccchHHHHHHHHHHHHhc-CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEE
Q 007255          356 SGAELYS--MYVGESEALLRNTFQRARLA-APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILV  432 (611)
Q Consensus       356 ~~~~~~~--~~~g~~~~~~~~~~~~a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  432 (611)
                      ++..+..  .+.+.....+..++..+... .|.+|||||+|.+.+.+..... .    ..+.+.|...++    ..++++
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~-~----~~~~~~l~~~~~----~~~~~i  155 (187)
T 2p65_A           85 DLSSLIAGAKYRGDFEERLKSILKEVQDAEGQVVMFIDEIHTVVGAGAVAEG-A----LDAGNILKPMLA----RGELRC  155 (187)
T ss_dssp             CHHHHHHHCCSHHHHHHHHHHHHHHHHHTTTSEEEEETTGGGGSSSSSSCTT-S----CCTHHHHHHHHH----TTCSCE
T ss_pred             eHHHhhcCCCchhHHHHHHHHHHHHHHhcCCceEEEEeCHHHhccccccccc-c----hHHHHHHHHHHh----cCCeeE
Confidence            8877753  35566667788888777665 6789999999999755431111 1    223344444443    356889


Q ss_pred             EEecCCCc-----ccchhccCCCCccceeecCCCC
Q 007255          433 LAATNRPH-----AIDAALMRPGRFDLVLYVPPPD  462 (611)
Q Consensus       433 I~~tn~~~-----~ld~al~r~gRf~~~i~~~~p~  462 (611)
                      |++||.++     .+|+++.+  ||+ .+.++.|+
T Consensus       156 i~~~~~~~~~~~~~~~~~l~~--R~~-~i~i~~p~  187 (187)
T 2p65_A          156 IGATTVSEYRQFIEKDKALER--RFQ-QILVEQPS  187 (187)
T ss_dssp             EEEECHHHHHHHTTTCHHHHH--HEE-EEECCSCC
T ss_pred             EEecCHHHHHHHHhccHHHHH--hcC-cccCCCCC
Confidence            99999876     58999999  999 59999886

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.60  E-value=2.8e-14  Score=149.58  Aligned_cols=221  Identities=14%  Similarity=0.101  Sum_probs=154.9

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCC--CcceeCCCCCChHHHHHHHHHHh----CCcEEeecchhhc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVR--GALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELY  361 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~--~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~~~~~~  361 (611)
                      ..++++|.+...+.+...+...+.        + ..+.  +++|+||||||||+++++++..+    +..++.+++....
T Consensus        15 ~p~~l~gr~~~~~~l~~~l~~~~~--------~-~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~   85 (389)
T 1fnn_A           15 VPKRLPHREQQLQQLDILLGNWLR--------N-PGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYR   85 (389)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHH--------S-TTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCC
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHc--------C-CCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCC
Confidence            447899999998888887764211        1 2233  79999999999999999999998    5678888865432


Q ss_pred             cc----------------cccc-hHHHHHHHHHHHHh-cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcC
Q 007255          362 SM----------------YVGE-SEALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (611)
Q Consensus       362 ~~----------------~~g~-~~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~  423 (611)
                      ..                ..+. .......+...... ..|.||+|||+|.+              ....+..|+..++.
T Consensus        86 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l--------------~~~~~~~L~~~~~~  151 (389)
T 1fnn_A           86 NFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNL--------------APDILSTFIRLGQE  151 (389)
T ss_dssp             SHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGS--------------CHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECcccc--------------chHHHHHHHHHHHh
Confidence            20                0111 12223333333332 45789999999987              13566777777764


Q ss_pred             CCC--CCCeEEEEecCCC---cccchhccCCCCccc-eeecCCCCHHHHHHHHHHHhcC---CCCCCcccHHHHHHhC--
Q 007255          424 LEQ--AKGILVLAATNRP---HAIDAALMRPGRFDL-VLYVPPPDLEARHEILRVHTRN---MKVGDDVDLRSIAEET--  492 (611)
Q Consensus       424 ~~~--~~~~~vI~~tn~~---~~ld~al~r~gRf~~-~i~~~~p~~~~r~~il~~~~~~---~~~~~~~~~~~la~~~--  492 (611)
                      ...  ..++.+|++||.+   +.+++.+.+  ||.. .+.|++++.++..++++..+..   ....++..++.+++.+  
T Consensus       152 ~~~~~~~~~~iI~~~~~~~~~~~l~~~~~~--r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~  229 (389)
T 1fnn_A          152 ADKLGAFRIALVIVGHNDAVLNNLDPSTRG--IMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGA  229 (389)
T ss_dssp             HHHHSSCCEEEEEEESSTHHHHTSCHHHHH--HHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSB
T ss_pred             CCCCCcCCEEEEEEECCchHHHHhCHHhhh--cCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhh
Confidence            322  1578899999988   567788877  8875 8999999999999999876653   1223445678888888  


Q ss_pred             -------CCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCCC
Q 007255          493 -------ELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPA  536 (611)
Q Consensus       493 -------~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~~  536 (611)
                             .| ..+.+.++|+.+...+..+.  ...++.+++..++......
T Consensus       230 ~~~~~~~~G-~~r~~~~~l~~a~~~a~~~~--~~~i~~~~v~~~~~~~~~~  277 (389)
T 1fnn_A          230 QTPLDTNRG-DARLAIDILYRSAYAAQQNG--RKHIAPEDVRKSSKEVLFG  277 (389)
T ss_dssp             SSTTCTTSC-CHHHHHHHHHHHHHHHHHTT--CSSCCHHHHHHHHHHHSCC
T ss_pred             cccCCCCCC-cHHHHHHHHHHHHHHHHHhC--CCCcCHHHHHHHHHHHhhh
Confidence                   45 67888899998887776543  3457888888887766544

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.60  E-value=7.8e-15  Score=147.30  Aligned_cols=167  Identities=12%  Similarity=0.074  Sum_probs=118.4

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEE
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVI   84 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v   84 (611)
                      |..-+-|.|.++..+.|..++...+.         -..+.+++|+||||||||++++++++++          ...++++
T Consensus        16 ~~~~~~L~~Re~E~~~i~~~L~~~i~---------~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~I   86 (318)
T 3te6_A           16 LQKRELLKSQVEDFTRIFLPIYDSLM---------SSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHI   86 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH---------TTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEE
T ss_pred             cCCccccCCHHHHHHHHHHHHHHHhc---------CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEE
Confidence            33444477888888888887755332         2367899999999999999999999998          3467888


Q ss_pred             cccccccc----------------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHH
Q 007255           85 SPHSVHKA----------------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFT  148 (611)
Q Consensus        85 ~~~~~~~~----------------~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~  148 (611)
                      +|..+.+.                ..+.....+...|.....  ....++|++|||+|.+..         ..++..+++
T Consensus        87 Nc~~~~t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~--~~~~~~ii~lDE~d~l~~---------q~~L~~l~~  155 (318)
T 3te6_A           87 DALELAGMDALYEKIWFAISKENLCGDISLEALNFYITNVPK--AKKRKTLILIQNPENLLS---------EKILQYFEK  155 (318)
T ss_dssp             ETTCCC--HHHHHHHHHHHSCCC--CCCCHHHHHHHHHHSCG--GGSCEEEEEEECCSSSCC---------THHHHHHHH
T ss_pred             eccccCCHHHHHHHHHHHhcCCCCCchHHHHHHHHHHHHhhh--ccCCceEEEEecHHHhhc---------chHHHHHHh
Confidence            87654321                123345566777765411  134578999999999971         145555555


Q ss_pred             HHhcCCCCCCCCCcEEEEEeecCcc----cccHHhhccCCcc-eEEEccCCCHHHHHHHHHHhhcC
Q 007255          149 LMDSNKPSKTSVPHVVVVASTNRVD----AIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKK  209 (611)
Q Consensus       149 ~l~~~~~~~~~~~~v~ii~ttn~~~----~l~~~l~~~~Rf~-~~i~~~~p~~~~r~~Il~~~~~~  209 (611)
                      +...      ...++.+|+.+|..+    .+++++++  ||. ..|.|++|+.++..+|++..+..
T Consensus       156 ~~~~------~~s~~~vI~i~n~~d~~~~~L~~~v~S--R~~~~~i~F~pYt~~el~~Il~~Rl~~  213 (318)
T 3te6_A          156 WISS------KNSKLSIICVGGHNVTIREQINIMPSL--KAHFTEIKLNKVDKNELQQMIITRLKS  213 (318)
T ss_dssp             HHHC------SSCCEEEEEECCSSCCCHHHHHTCHHH--HTTEEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             cccc------cCCcEEEEEEecCcccchhhcchhhhc--cCCceEEEeCCCCHHHHHHHHHHHHHh
Confidence            4432      123588999998865    35667777  876 57999999999999999988765

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.60  E-value=1.8e-14  Score=150.73  Aligned_cols=223  Identities=17%  Similarity=0.178  Sum_probs=154.1

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh------CCcEEeecchh
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA------EASFFSLSGAE  359 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~------~~~~~~~~~~~  359 (611)
                      ....++++|.+...+.+.+.+...+.         ...+.+++|+||||||||++++++++.+      +..++.+++..
T Consensus        16 ~~~p~~~~gr~~e~~~l~~~l~~~~~---------~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~   86 (386)
T 2qby_A           16 DYIPDELPHREDQIRKIASILAPLYR---------EEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQ   86 (386)
T ss_dssp             SCCCSCCTTCHHHHHHHHHSSGGGGG---------TCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHH
T ss_pred             ccCCCCCCChHHHHHHHHHHHHHHHc---------CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCC
Confidence            34457899999999988887663221         1345689999999999999999999988      88899988754


Q ss_pred             hccc----------------cccc-hHHHHHHHHHHHHhcC-CcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHh
Q 007255          360 LYSM----------------YVGE-SEALLRNTFQRARLAA-PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEM  421 (611)
Q Consensus       360 ~~~~----------------~~g~-~~~~~~~~~~~a~~~~-p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l  421 (611)
                      ....                ..+. .......++....... |.||+|||++.+....          ....+..|+..+
T Consensus        87 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~----------~~~~l~~l~~~~  156 (386)
T 2qby_A           87 IDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKY----------NDDILYKLSRIN  156 (386)
T ss_dssp             HCSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSS----------CSTHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccC----------cCHHHHHHhhch
Confidence            3211                1122 2333555555555443 8899999999885331          024567777777


Q ss_pred             cCCCCCCCeEEEEecCCCc---ccchhccCCCCcc-ceeecCCCCHHHHHHHHHHHhcC-C--CCCCcccHHHHHHhCC-
Q 007255          422 DGLEQAKGILVLAATNRPH---AIDAALMRPGRFD-LVLYVPPPDLEARHEILRVHTRN-M--KVGDDVDLRSIAEETE-  493 (611)
Q Consensus       422 ~~~~~~~~~~vI~~tn~~~---~ld~al~r~gRf~-~~i~~~~p~~~~r~~il~~~~~~-~--~~~~~~~~~~la~~~~-  493 (611)
                      +.. ...++.+|++|+.++   .+++.+.+  ||. ..+.+++++.++..++++..+.. .  ....+..+..++..+. 
T Consensus       157 ~~~-~~~~~~~I~~~~~~~~~~~~~~~~~~--r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~  233 (386)
T 2qby_A          157 SEV-NKSKISFIGITNDVKFVDLLDPRVKS--SLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAR  233 (386)
T ss_dssp             HSC-CC--EEEEEEESCGGGGGGCTTHHHH--TTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHH
T ss_pred             hhc-CCCeEEEEEEECCCChHhhhCHHHhc--cCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHH
Confidence            644 455788899999874   57788877  775 48999999999999999976542 1  1123334566777666 


Q ss_pred             --CCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhc
Q 007255          494 --LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       494 --g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~  533 (611)
                        | +.+.+.++|..+...+..+.  ...++.+++..++...
T Consensus       234 ~~G-~~r~~~~ll~~a~~~a~~~~--~~~i~~~~v~~a~~~~  272 (386)
T 2qby_A          234 EHG-DARRALDLLRVSGEIAERMK--DTKVKEEYVYMAKEEI  272 (386)
T ss_dssp             TTC-CHHHHHHHHHHHHHHHHHTT--CSSCCHHHHHHHHHHH
T ss_pred             hcC-CHHHHHHHHHHHHHHHHhcC--CCccCHHHHHHHHHHH
Confidence              6 57777888888877665432  3467888887776554

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.60  E-value=1.3e-14  Score=172.42  Aligned_cols=150  Identities=19%  Similarity=0.237  Sum_probs=97.1

Q ss_pred             cccccccccccCCcHHHHHHHHHHHHhhhhC----------chHHHh------cC------------CCCCceEEEEcCC
Q 007255           11 HNEKWKAEEAIGGNRAAVEALRELITFPLLY----------SSQAQK------LG------------LKWPRGLLLYGPP   62 (611)
Q Consensus        11 ~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~----------~~~~~~------~g------------~~~~~~iLl~Gp~   62 (611)
                      ..+.|   +++.|++++|+.+.+.+..|+.+          ++.+..      .|            .+..+.+++||||
T Consensus      1015 ~~~~~---~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~ 1091 (1706)
T 3cmw_A         1015 SGSST---GSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPE 1091 (1706)
T ss_dssp             ------------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECST
T ss_pred             CCcee---eecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCC
Confidence            34555   89999999999999999988843          334444      22            3344569999999


Q ss_pred             CCcHHHHHHHHHHHh---CCcEEEEcccccc------------cccccc----hHHHHHHHHHHHHhhhhcCCCeEEEEc
Q 007255           63 GTGKTSLVRAVVREC---GAHLTVISPHSVH------------KAHVGE----SEKALREAFSQASSHALSGKPSVVFID  123 (611)
Q Consensus        63 GtGKT~la~~la~~l---~~~~~~v~~~~~~------------~~~~~~----~~~~l~~~f~~~~~~~~~~~~~il~ID  123 (611)
                      |||||+++++++.+.   +.+.+.++.....            +.+.++    .++.++.+|..+.+.    .|+++++|
T Consensus      1092 g~GKT~la~~~~~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~----~~~~i~~d 1167 (1706)
T 3cmw_A         1092 SSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSG----AVDVIVVD 1167 (1706)
T ss_dssp             TSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHT----CCSEEEES
T ss_pred             CCChHHHHHHHHHHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhc----CCeEEEeC
Confidence            999999999998766   4556666655433            334445    788888888777654    39999999


Q ss_pred             cccccCCCCC-----C--CchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCc
Q 007255          124 EIDALCPRRD-----H--RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV  172 (611)
Q Consensus       124 eid~l~~~~~-----~--~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~  172 (611)
                      +++.|++.++     +  ......+++++++.-++......    +|++| +||+.
T Consensus      1168 ~~~al~~~~~~~g~~~~~~~~~~~r~~~q~l~~~~~~~~~~----~v~v~-~~n~~ 1218 (1706)
T 3cmw_A         1168 SVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQS----NTLLI-FINQI 1218 (1706)
T ss_dssp             CGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHHT----TCEEE-EEECE
T ss_pred             chHhcCcccccccccccccccHHHHHHHHHHHHHHhhhccC----CeEEE-Eeccc
Confidence            9999999732     1  11234456777777776522211    35666 56663

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.60  E-value=5.6e-15  Score=158.28  Aligned_cols=184  Identities=19%  Similarity=0.332  Sum_probs=126.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~   85 (611)
                      ..+++++|.++.++.+.+.+..             ...+++||+||||||||++++++|+.+          +.+++.++
T Consensus       177 ~~ld~iiGr~~~i~~l~~~l~r-------------~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~  243 (468)
T 3pxg_A          177 DSLDPVIGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLD  243 (468)
T ss_dssp             SCSCCCCCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-
T ss_pred             CCCCCccCcHHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEee
Confidence            4578999999999999887643             245799999999999999999999997          67788888


Q ss_pred             ccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEE
Q 007255           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVV  165 (611)
Q Consensus        86 ~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~i  165 (611)
                      ++   ..+.|.....++.+|..+...    .++|||||      ..        ....+.|+..++.        +.+.+
T Consensus       244 ~~---~~~~g~~e~~~~~~~~~~~~~----~~~iLfiD------~~--------~~a~~~L~~~L~~--------g~v~v  294 (468)
T 3pxg_A          244 MG---TKYRGEFEDRLKKVMDEIRQA----GNIILFID------AA--------IDASNILKPSLAR--------GELQC  294 (468)
T ss_dssp             ------------CTTHHHHHHHHHTC----CCCEEEEC------C----------------CCCTTS--------SSCEE
T ss_pred             CC---ccccchHHHHHHHHHHHHHhc----CCeEEEEe------Cc--------hhHHHHHHHhhcC--------CCEEE
Confidence            76   455666666778888877643    58899999      10        1233444444432        25789


Q ss_pred             EEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCC----CC-CcccHHHHHHhccCCccc----
Q 007255          166 VASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP----LD-ANVDLEAIATSCNGYVGA----  231 (611)
Q Consensus       166 i~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~----~~-~~~~~~~la~~~~g~~~~----  231 (611)
                      |++||..+     .+++++.+  ||. .+.|+.|+.+++..|++.+...+.    .. .+..+..++..+.+|...    
T Consensus       295 I~at~~~e~~~~~~~~~al~~--Rf~-~i~v~~p~~e~~~~iL~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp  371 (468)
T 3pxg_A          295 IGATTLDEYRKYIEKDAALER--RFQ-PIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLP  371 (468)
T ss_dssp             EEECCTTTTHHHHTTCSHHHH--SEE-EEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTT
T ss_pred             EecCCHHHHHHHhhcCHHHHH--hCc-cceeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCC
Confidence            99999876     68999999  997 699999999999999998876632    21 223366677766666543    


Q ss_pred             -cHHHHHHHHHHHH
Q 007255          232 -DLEALCREATMSA  244 (611)
Q Consensus       232 -dl~~l~~~a~~~a  244 (611)
                       ....+++++....
T Consensus       372 ~~ai~ll~~a~~~~  385 (468)
T 3pxg_A          372 DKAIDLIDEAGSKV  385 (468)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHH
Confidence             5566666666443

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.60  E-value=2.5e-14  Score=146.67  Aligned_cols=164  Identities=18%  Similarity=0.223  Sum_probs=112.8

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc--ccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH--KAH   93 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~--~~~   93 (611)
                      ..+++++|++++++.+...+..               +.++||+||||||||++++++++.++.+++.++++...  ...
T Consensus        24 ~~~~~i~g~~~~~~~l~~~l~~---------------~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l   88 (331)
T 2r44_A           24 EVGKVVVGQKYMINRLLIGICT---------------GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDL   88 (331)
T ss_dssp             HHTTTCCSCHHHHHHHHHHHHH---------------TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHH
T ss_pred             HhccceeCcHHHHHHHHHHHHc---------------CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhc
Confidence            3467899999999988777643               25999999999999999999999999999888764211  000


Q ss_pred             ccchH-HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCcEEEEE
Q 007255           94 VGESE-KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVVVVA  167 (611)
Q Consensus        94 ~~~~~-~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~~~~~v~ii~  167 (611)
                      .+... ......|. .  ....-..+||||||+|.+.+          ..+..|+..++.....     ...+.++++|+
T Consensus        89 ~g~~~~~~~~~~~~-~--~~g~l~~~vl~iDEi~~~~~----------~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~via  155 (331)
T 2r44_A           89 IGTMIYNQHKGNFE-V--KKGPVFSNFILADEVNRSPA----------KVQSALLECMQEKQVTIGDTTYPLDNPFLVLA  155 (331)
T ss_dssp             HEEEEEETTTTEEE-E--EECTTCSSEEEEETGGGSCH----------HHHHHHHHHHHHSEEEETTEEEECCSSCEEEE
T ss_pred             CCceeecCCCCceE-e--ccCcccccEEEEEccccCCH----------HHHHHHHHHHhcCceeeCCEEEECCCCEEEEE
Confidence            00000 00000000 0  00000136999999998744          5677888888763210     11233578889


Q ss_pred             eecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcC
Q 007255          168 STNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK  209 (611)
Q Consensus       168 ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~  209 (611)
                      |+|+.+     .+++++.+  ||...+.+++|+.+++.+|++.....
T Consensus       156 t~np~~~~~~~~l~~~l~~--Rf~~~i~i~~p~~~~~~~il~~~~~~  200 (331)
T 2r44_A          156 TQNPVEQEGTYPLPEAQVD--RFMMKIHLTYLDKESELEVMRRVSNM  200 (331)
T ss_dssp             EECTTCCSCCCCCCHHHHT--TSSEEEECCCCCHHHHHHHHHHHHCT
T ss_pred             ecCCCcccCcccCCHHHHh--heeEEEEcCCCCHHHHHHHHHhcccc
Confidence            998654     38999998  99888999999999999999988764

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=99.60  E-value=1.2e-14  Score=148.48  Aligned_cols=195  Identities=21%  Similarity=0.305  Sum_probs=127.2

Q ss_pred             ccccccC---CcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccc
Q 007255           16 KAEEAIG---GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSV   89 (611)
Q Consensus        16 ~~~~~i~---G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~   89 (611)
                      .+|++++   ++......+..++..+           ...+.+++|+||||||||++++++++.+   +.+++.+++.++
T Consensus         8 ~~f~~fv~g~~~~~a~~~~~~~~~~~-----------~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~   76 (324)
T 1l8q_A            8 YTLENFIVGEGNRLAYEVVKEALENL-----------GSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDF   76 (324)
T ss_dssp             CCSSSCCCCTTTHHHHHHHHHHHHTT-----------TTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CCcccCCCCCcHHHHHHHHHHHHhCc-----------CCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHH
Confidence            4677886   4555555555554332           1245799999999999999999999998   889999998776


Q ss_pred             ccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee
Q 007255           90 HKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (611)
Q Consensus        90 ~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt  169 (611)
                      .....+.........|....     .++.+|||||+|.+....        ..+..++..++.....    +..++++++
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~-----~~~~vL~iDEi~~l~~~~--------~~~~~l~~~l~~~~~~----~~~iii~~~  139 (324)
T 1l8q_A           77 AQAMVEHLKKGTINEFRNMY-----KSVDLLLLDDVQFLSGKE--------RTQIEFFHIFNTLYLL----EKQIILASD  139 (324)
T ss_dssp             HHHHHHHHHHTCHHHHHHHH-----HTCSEEEEECGGGGTTCH--------HHHHHHHHHHHHHHHT----TCEEEEEES
T ss_pred             HHHHHHHHHcCcHHHHHHHh-----cCCCEEEEcCcccccCCh--------HHHHHHHHHHHHHHHC----CCeEEEEec
Confidence            44332221111111222221     137799999999986521        2334444444332111    135666666


Q ss_pred             cCcc---cccHHhhccCCcc--eEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCccccHHHHHHHHHHH
Q 007255          170 NRVD---AIDPALRRSGRFD--AEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREATMS  243 (611)
Q Consensus       170 n~~~---~l~~~l~~~~Rf~--~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~~~dl~~l~~~a~~~  243 (611)
                      +++.   .+++++.+  ||.  ..+.+++ +.+++.+|++..+......- +..++.++..+ | +.+++.+++..+...
T Consensus       140 ~~~~~l~~l~~~L~s--R~~~~~~i~l~~-~~~e~~~il~~~~~~~~~~l~~~~l~~l~~~~-g-~~r~l~~~l~~~~~~  214 (324)
T 1l8q_A          140 RHPQKLDGVSDRLVS--RFEGGILVEIEL-DNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-K-NVREIEGKIKLIKLK  214 (324)
T ss_dssp             SCGGGCTTSCHHHHH--HHHTSEEEECCC-CHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-S-SHHHHHHHHHHHHHH
T ss_pred             CChHHHHHhhhHhhh--cccCceEEEeCC-CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhC-C-CHHHHHHHHHHHHHc
Confidence            6666   68899998  875  6799999 99999999999887544332 23477888887 4 456677777665543

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=99.59  E-value=7.7e-15  Score=151.65  Aligned_cols=222  Identities=26%  Similarity=0.289  Sum_probs=132.1

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE----Ecccccc-
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV----ISPHSVH-   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~----v~~~~~~-   90 (611)
                      ..|++++|++.+++.+......+             .+.++||+||||||||++++++++.++.....    +++.... 
T Consensus        21 ~~f~~i~G~~~~~~~l~~~~~~~-------------~~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~   87 (350)
T 1g8p_A           21 FPFSAIVGQEDMKLALLLTAVDP-------------GIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEM   87 (350)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHCG-------------GGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGG
T ss_pred             CCchhccChHHHHHHHHHHhhCC-------------CCceEEEECCCCccHHHHHHHHHHhCcccccccccccccccccc
Confidence            46789999999877654433211             23579999999999999999999998632110    1111110 


Q ss_pred             --------------------cccccchHHHH------HHHHHHHHhhh-----hcCCCeEEEEccccccCCCCCCCchhh
Q 007255           91 --------------------KAHVGESEKAL------REAFSQASSHA-----LSGKPSVVFIDEIDALCPRRDHRREQD  139 (611)
Q Consensus        91 --------------------~~~~~~~~~~l------~~~f~~~~~~~-----~~~~~~il~IDeid~l~~~~~~~~~~~  139 (611)
                                          ....+.+...+      ...+.......     ....++||||||+|.+.+         
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~~---------  158 (350)
T 1g8p_A           88 IPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLED---------  158 (350)
T ss_dssp             SCTTCCCSCCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCH---------
T ss_pred             ccchhhhhccccccCCCcccccCCCcchhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCCH---------
Confidence                                00011111111      11222211100     012378999999998854         


Q ss_pred             HHHHHHHHHHHhcCC----CCC---CCCCcEEEEEeecCcc-cccHHhhccCCcceEEEccCC-CHHHHHHHHHHhhc--
Q 007255          140 VRIASQLFTLMDSNK----PSK---TSVPHVVVVASTNRVD-AIDPALRRSGRFDAEVEVTVP-TAEERFEILKLYTK--  208 (611)
Q Consensus       140 ~~~~~~ll~~l~~~~----~~~---~~~~~v~ii~ttn~~~-~l~~~l~~~~Rf~~~i~~~~p-~~~~r~~Il~~~~~--  208 (611)
                       ..+..|+..++...    ...   ..+.++++|+++|+.+ .+++++.+  ||...+.+++| +.+++.+|++....  
T Consensus       159 -~~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~--R~~~~~~l~~~~~~~~~~~il~~~~~~~  235 (350)
T 1g8p_A          159 -HIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVETRVEVIRRRDTYD  235 (350)
T ss_dssp             -HHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCCCCCCHHHHh--hcceEEEcCCCCcHHHHHHHHHHHHhcc
Confidence             55778888887531    111   0123689999999854 89999999  99888999999 67777788865211  


Q ss_pred             -----------------------------CCCCCCcccHHHHHHhccCC---ccccHHHHHHHHHHHHhhhccccccccc
Q 007255          209 -----------------------------KVPLDANVDLEAIATSCNGY---VGADLEALCREATMSAVKRSSDANECAG  256 (611)
Q Consensus       209 -----------------------------~~~~~~~~~~~~la~~~~g~---~~~dl~~l~~~a~~~a~~r~~~~~~~~~  256 (611)
                                                   ...++ +..++.++..+.+.   +.+.+.++++.|...+.....       
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ls-~~~~~~l~~~~~~~~~~~~R~~~~ll~~a~~~A~~~~~-------  307 (350)
T 1g8p_A          236 ADPKAFLEEWRPKDMDIRNQILEARERLPKVEAP-NTALYDCAALCIALGSDGLRGELTLLRSARALAALEGA-------  307 (350)
T ss_dssp             HCHHHHHHHHHHHHHHHHHHHHHHHHHGGGCBCC-HHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTTC-------
T ss_pred             cCchhhccccccchHHHHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCC-------
Confidence                                         11111 22345555554443   347777887777665543322       


Q ss_pred             ccchhHHHHHHHHhc
Q 007255          257 VLSVTMEDWRHARSV  271 (611)
Q Consensus       257 ~~~v~~ed~~~a~~~  271 (611)
                       ..++.+|+..+...
T Consensus       308 -~~v~~~~v~~a~~~  321 (350)
T 1g8p_A          308 -TAVGRDHLKRVATM  321 (350)
T ss_dssp             -SBCCHHHHHHHHHH
T ss_pred             -CcCCHHHHHHHHHH
Confidence             13667777666554

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.59  E-value=7.4e-15  Score=152.06  Aligned_cols=192  Identities=14%  Similarity=0.153  Sum_probs=133.8

Q ss_pred             cCCCcccccccchhHHHHHHHHHh-hccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC-----------
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAV-EWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-----------  350 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~-~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~-----------  350 (611)
                      .+.+.+|++++|++.+.+.+...+ ..            ...++ ++|+||+|+|||++++++|.++..           
T Consensus         7 kyrP~~~~~~vg~~~~~~~l~~~~~~~------------~~~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~   73 (354)
T 1sxj_E            7 KYRPKSLNALSHNEELTNFLKSLSDQP------------RDLPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVR   73 (354)
T ss_dssp             TTCCCSGGGCCSCHHHHHHHHTTTTCT------------TCCCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------
T ss_pred             ccCCCCHHHhcCCHHHHHHHHHHHhhC------------CCCCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecce
Confidence            445678999999999999888876 31            13344 999999999999999999996521           


Q ss_pred             ------------------cEEeecchhhccccccchHHHHHHHHHHHH--------------hcCCcEEEEccccccccc
Q 007255          351 ------------------SFFSLSGAELYSMYVGESEALLRNTFQRAR--------------LAAPSIIFFDEADVVGAK  398 (611)
Q Consensus       351 ------------------~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~--------------~~~p~il~iDeid~l~~~  398 (611)
                                        .++.+++++..    ......++..++.+.              ...|.|++|||++.+-  
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~--  147 (354)
T 1sxj_E           74 QFVTASNRKLELNVVSSPYHLEITPSDMG----NNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLT--  147 (354)
T ss_dssp             ------------CCEECSSEEEECCC--------CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSC--
T ss_pred             eecccccccceeeeecccceEEecHhhcC----CcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccC--
Confidence                              12222222110    001112344443332              2357799999999761  


Q ss_pred             CCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCC
Q 007255          399 RGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMK  478 (611)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~  478 (611)
                                  ....+.|++.|+.  ...++.+|++|+.++.+.+++.+  |+ ..+.|++|+.+++..+++..++..+
T Consensus       148 ------------~~~~~~L~~~le~--~~~~~~~Il~t~~~~~l~~~l~s--R~-~~~~~~~~~~~~~~~~l~~~~~~~~  210 (354)
T 1sxj_E          148 ------------KDAQAALRRTMEK--YSKNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPAPSDSEISTILSDVVTNER  210 (354)
T ss_dssp             ------------HHHHHHHHHHHHH--STTTEEEEEEESCSCSSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHT
T ss_pred             ------------HHHHHHHHHHHHh--hcCCCEEEEEeCCHHHHHHHHHh--hc-eEEecCCcCHHHHHHHHHHHHHHcC
Confidence                        3456778888874  34568888899999999999998  88 5899999999999999997765443


Q ss_pred             CC-C-cccHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 007255          479 VG-D-DVDLRSIAEETELFTGAELEGLCREAGIVA  511 (611)
Q Consensus       479 ~~-~-~~~~~~la~~~~g~s~~~i~~~~~~a~~~a  511 (611)
                      +. + +..++.+++.+.| +.+++.++++.+....
T Consensus       211 ~~~~~~~~l~~i~~~~~G-~~r~a~~~l~~~~~~~  244 (354)
T 1sxj_E          211 IQLETKDILKRIAQASNG-NLRVSLLMLESMALNN  244 (354)
T ss_dssp             CEECCSHHHHHHHHHHTT-CHHHHHHHHTHHHHTT
T ss_pred             CCCCcHHHHHHHHHHcCC-CHHHHHHHHHHHHHhC
Confidence            32 3 5567889998877 6777777777665543

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=99.58  E-value=1.4e-13  Score=141.08  Aligned_cols=217  Identities=21%  Similarity=0.258  Sum_probs=145.6

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccc
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~   94 (611)
                      .+.+++++|++.+++.+...+.....       .+ .++.+++|+|||||||||+++++|..++.++...+...+..   
T Consensus        21 ~~~l~~~~g~~~~~~~l~~~i~~~~~-------~~-~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~~---   89 (334)
T 1in4_A           21 PKSLDEFIGQENVKKKLSLALEAAKM-------RG-EVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVK---   89 (334)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHHHH-------HT-CCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCS---
T ss_pred             CccHHHccCcHHHHHHHHHHHHHHHh-------cC-CCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhcC---
Confidence            36789999999999988877643211       01 34578999999999999999999999998877666543321   


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----C-------CCCCc
Q 007255           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----K-------TSVPH  162 (611)
Q Consensus        95 ~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~-------~~~~~  162 (611)
                         ...+...+..      ..++.|+||||+|.+.+          .....++..++.....     .       .....
T Consensus        90 ---~~~l~~~~~~------~~~~~v~~iDE~~~l~~----------~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~  150 (334)
T 1in4_A           90 ---QGDMAAILTS------LERGDVLFIDEIHRLNK----------AVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQP  150 (334)
T ss_dssp             ---HHHHHHHHHH------CCTTCEEEEETGGGCCH----------HHHHHHHHHHHTSCCCC---------------CC
T ss_pred             ---HHHHHHHHHH------ccCCCEEEEcchhhcCH----------HHHHHHHHHHHhcccceeeccCcccccccccCCC
Confidence               1222222221      12367999999998854          2344455555433210     0       01134


Q ss_pred             EEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCccccHHHHHHHHH
Q 007255          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       163 v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                      +.++++++.+..+++.+++  ||...+.+++|+.+++.+|++.......... +..+..++..+.|.. +.+..+++.+.
T Consensus       151 ~~li~at~~~~~Ls~~l~s--R~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~~~~~~~~ia~~~~G~~-R~a~~ll~~~~  227 (334)
T 1in4_A          151 FTLVGATTRSGLLSSPLRS--RFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTP-RIAIRLTKRVR  227 (334)
T ss_dssp             CEEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTTCH-HHHHHHHHHHH
T ss_pred             eEEEEecCCcccCCHHHHH--hcCceeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhcCCCh-HHHHHHHHHHH
Confidence            6778899999999999999  9987899999999999999998876554432 234778888877754 66777777665


Q ss_pred             HHHhhhcccccccccccchhHHHHHHHHhcc
Q 007255          242 MSAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       242 ~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i  272 (611)
                      ..+.....        ..++.++...+....
T Consensus       228 ~~a~~~~~--------~~It~~~v~~al~~~  250 (334)
T 1in4_A          228 DMLTVVKA--------DRINTDIVLKTMEVL  250 (334)
T ss_dssp             HHHHHHTC--------SSBCHHHHHHHHHHH
T ss_pred             HHHHHcCC--------CCcCHHHHHHHHHHh
Confidence            54433211        135666666665543

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=99.57  E-value=2.1e-14  Score=152.43  Aligned_cols=191  Identities=17%  Similarity=0.212  Sum_probs=125.9

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      +++++|+||||||||++++++++.+     +..++.+++..+...............|....    ..++.||||||+|.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~vL~IDEi~~  205 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKLNEFREKY----RKKVDILLIDDVQF  205 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHHHHHHHHHHTTCHHHHHHHH----TTTCSEEEEECGGG
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHcccHHHHHHHh----cCCCCEEEEeCccc
Confidence            5799999999999999999999988     78888888876543222111110011122111    11478999999999


Q ss_pred             cCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccc---ccHHhhccCCcc--eEEEccCCCHHHHHHH
Q 007255          128 LCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA---IDPALRRSGRFD--AEVEVTVPTAEERFEI  202 (611)
Q Consensus       128 l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~---l~~~l~~~~Rf~--~~i~~~~p~~~~r~~I  202 (611)
                      +....        ..+..++..++.....    +..+++++.+++..   +++++.+  ||.  ..+.+++|+.+++..|
T Consensus       206 l~~~~--------~~q~~l~~~l~~l~~~----~~~iIitt~~~~~~l~~l~~~L~s--R~~~g~~i~l~~p~~e~r~~i  271 (440)
T 2z4s_A          206 LIGKT--------GVQTELFHTFNELHDS----GKQIVICSDREPQKLSEFQDRLVS--RFQMGLVAKLEPPDEETRKSI  271 (440)
T ss_dssp             GSSCH--------HHHHHHHHHHHHHHTT----TCEEEEEESSCGGGCSSCCHHHHH--HHHSSBCCBCCCCCHHHHHHH
T ss_pred             ccCCh--------HHHHHHHHHHHHHHHC----CCeEEEEECCCHHHHHHHHHHHHh--hccCCeEEEeCCCCHHHHHHH
Confidence            86531        2344555555432211    13556666555654   7899998  775  6789999999999999


Q ss_pred             HHHhhcCCC--CCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhcc
Q 007255          203 LKLYTKKVP--LDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       203 l~~~~~~~~--~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i  272 (611)
                      ++..+...+  ++.+ .+..++..+.| +.+++.++++.+...+....         ..++.+++..+....
T Consensus       272 L~~~~~~~~~~i~~e-~l~~la~~~~g-n~R~l~~~L~~~~~~a~~~~---------~~It~~~~~~~l~~~  332 (440)
T 2z4s_A          272 ARKMLEIEHGELPEE-VLNFVAENVDD-NLRRLRGAIIKLLVYKETTG---------KEVDLKEAILLLKDF  332 (440)
T ss_dssp             HHHHHHHHTCCCCTT-HHHHHHHHCCS-CHHHHHHHHHHHHHHHHHSS---------SCCCHHHHHHHTSTT
T ss_pred             HHHHHHHcCCCCCHH-HHHHHHHhcCC-CHHHHHHHHHHHHHHHHHhC---------CCCCHHHHHHHHHHH
Confidence            998876433  3333 47788887765 67788888887776554211         136777777765544

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=99.56  E-value=7.8e-14  Score=142.50  Aligned_cols=175  Identities=22%  Similarity=0.278  Sum_probs=125.2

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEcccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~-----~~~~v~~~~~~   90 (611)
                      ..+++++|++++++.|..++...             ...++||+||||||||++++++++.+..     .++.+++++..
T Consensus        22 ~~~~~~~g~~~~~~~l~~~l~~~-------------~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (327)
T 1iqp_A           22 QRLDDIVGQEHIVKRLKHYVKTG-------------SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDER   88 (327)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHT-------------CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHH
T ss_pred             CCHHHhhCCHHHHHHHHHHHHcC-------------CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccC
Confidence            55899999999999999887541             2346999999999999999999998742     36677665432


Q ss_pred             cccccchHHHHHHHHHHH-Hhhhhc-CCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEe
Q 007255           91 KAHVGESEKALREAFSQA-SSHALS-GKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~-~~~~~~-~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t  168 (611)
                      ..      ..++..+... ...... +++.|++|||+|.+.+          ..+..|+..++...      .++.+|++
T Consensus        89 ~~------~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~----------~~~~~L~~~le~~~------~~~~~i~~  146 (327)
T 1iqp_A           89 GI------NVIREKVKEFARTKPIGGASFKIIFLDEADALTQ----------DAQQALRRTMEMFS------SNVRFILS  146 (327)
T ss_dssp             HH------HTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCH----------HHHHHHHHHHHHTT------TTEEEEEE
T ss_pred             ch------HHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCH----------HHHHHHHHHHHhcC------CCCeEEEE
Confidence            10      1111111111 111112 5688999999998854          45677888887632      25778888


Q ss_pred             ecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCC
Q 007255          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGY  228 (611)
Q Consensus       169 tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~  228 (611)
                      +|.++.+.+.+.+  |+. .+.|++|+.++..++++..+...+.. .+..++.++..+.|.
T Consensus       147 ~~~~~~l~~~l~s--r~~-~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~  204 (327)
T 1iqp_A          147 CNYSSKIIEPIQS--RCA-IFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGD  204 (327)
T ss_dssp             ESCGGGSCHHHHH--TEE-EEECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTTC
T ss_pred             eCCccccCHHHHh--hCc-EEEecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHCCCC
Confidence            9999999999998  886 89999999999999999887765543 223467777776553

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.56  E-value=4.5e-14  Score=145.33  Aligned_cols=209  Identities=16%  Similarity=0.166  Sum_probs=139.6

Q ss_pred             cccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC-----cEEee
Q 007255          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-----SFFSL  355 (611)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~-----~~~~~  355 (611)
                      ...+.+.+|++++|++.+.+.|...+..           | ..++ ++|+||||||||++|+++|..+..     .+..+
T Consensus        16 ~~k~rp~~~~~~~g~~~~~~~L~~~i~~-----------g-~~~~-~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~   82 (340)
T 1sxj_C           16 VEKYRPETLDEVYGQNEVITTVRKFVDE-----------G-KLPH-LLFYGPPGTGKTSTIVALAREIYGKNYSNMVLEL   82 (340)
T ss_dssp             HHHTCCSSGGGCCSCHHHHHHHHHHHHT-----------T-CCCC-EEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEE
T ss_pred             HHHhCCCcHHHhcCcHHHHHHHHHHHhc-----------C-CCce-EEEECCCCCCHHHHHHHHHHHHcCCCccceEEEE
Confidence            3345667899999999999999888763           2 2333 999999999999999999998743     35666


Q ss_pred             cchhhccccccchHHHHHHHHHHHHh------cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCC
Q 007255          356 SGAELYSMYVGESEALLRNTFQRARL------AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKG  429 (611)
Q Consensus       356 ~~~~~~~~~~g~~~~~~~~~~~~a~~------~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  429 (611)
                      ++++..    |  ...++........      ..+.|++|||+|.+.              ....+.|++.++  .+...
T Consensus        83 ~~~~~~----~--~~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~--------------~~~~~~L~~~le--~~~~~  140 (340)
T 1sxj_C           83 NASDDR----G--IDVVRNQIKDFASTRQIFSKGFKLIILDEADAMT--------------NAAQNALRRVIE--RYTKN  140 (340)
T ss_dssp             CTTSCC----S--HHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSC--------------HHHHHHHHHHHH--HTTTT
T ss_pred             cCcccc----c--HHHHHHHHHHHHhhcccCCCCceEEEEeCCCCCC--------------HHHHHHHHHHHh--cCCCC
Confidence            655421    1  2233333333221      135799999999872              345678888887  45567


Q ss_pred             eEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHH
Q 007255          430 ILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAG  508 (611)
Q Consensus       430 ~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~  508 (611)
                      +.+|++||.++.+.+++.+  |+. .+.|+.++.++..+++...++...+. ++..+..++..+.| +.+.+.++++.+.
T Consensus       141 ~~~il~~n~~~~i~~~i~s--R~~-~~~~~~l~~~~~~~~l~~~~~~~~~~i~~~~~~~i~~~s~G-~~r~~~~~l~~~~  216 (340)
T 1sxj_C          141 TRFCVLANYAHKLTPALLS--QCT-RFRFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNG-DMRRVLNVLQSCK  216 (340)
T ss_dssp             EEEEEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTT-CHHHHHHHTTTTT
T ss_pred             eEEEEEecCccccchhHHh--hce-eEeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHH
Confidence            7888899999999999998  887 78899999999999888777433322 23446777777666 4444444443332


Q ss_pred             HHHHHhhcccccccHHHHHHHH
Q 007255          509 IVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       509 ~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      ..+..  -....++.+++..++
T Consensus       217 ~~~~~--~~~~~it~~~v~~~~  236 (340)
T 1sxj_C          217 ATLDN--PDEDEISDDVIYECC  236 (340)
T ss_dssp             TTTCS--SSCCCBCHHHHHHHT
T ss_pred             HhcCC--cccccccHHHHHHHh
Confidence            11110  001246666665554

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.56  E-value=1.2e-14  Score=135.56  Aligned_cols=152  Identities=21%  Similarity=0.345  Sum_probs=107.4

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~   85 (611)
                      ..+++++|.+..++.+.+.+..             ..+.+++|+||||||||++++++++.+          +..++.++
T Consensus        19 ~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~   85 (187)
T 2p65_A           19 GKLDPVIGRDTEIRRAIQILSR-------------RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLD   85 (187)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEEC
T ss_pred             cccchhhcchHHHHHHHHHHhC-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEe
Confidence            4578999999999988887632             245789999999999999999999987          67788887


Q ss_pred             cccccc--ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           86 PHSVHK--AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        86 ~~~~~~--~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      +..+..  .+.+.....+..++......   .++.+|+|||+|.+.+..... .....+...+...++.        .++
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~vl~iDe~~~l~~~~~~~-~~~~~~~~~l~~~~~~--------~~~  153 (187)
T 2p65_A           86 LSSLIAGAKYRGDFEERLKSILKEVQDA---EGQVVMFIDEIHTVVGAGAVA-EGALDAGNILKPMLAR--------GEL  153 (187)
T ss_dssp             HHHHHHHCCSHHHHHHHHHHHHHHHHHT---TTSEEEEETTGGGGSSSSSSC-TTSCCTHHHHHHHHHT--------TCS
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHHHhc---CCceEEEEeCHHHhccccccc-ccchHHHHHHHHHHhc--------CCe
Confidence            766542  23334444566666555432   357899999999997543211 1111334455555553        146


Q ss_pred             EEEEeecCcc-----cccHHhhccCCcceEEEccCCC
Q 007255          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPT  195 (611)
Q Consensus       164 ~ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~  195 (611)
                      .+|+++|.+.     .+++++.+  ||. .+.+++|+
T Consensus       154 ~ii~~~~~~~~~~~~~~~~~l~~--R~~-~i~i~~p~  187 (187)
T 2p65_A          154 RCIGATTVSEYRQFIEKDKALER--RFQ-QILVEQPS  187 (187)
T ss_dssp             CEEEEECHHHHHHHTTTCHHHHH--HEE-EEECCSCC
T ss_pred             eEEEecCHHHHHHHHhccHHHHH--hcC-cccCCCCC
Confidence            7888888765     58999999  997 59999886

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.56  E-value=6.7e-14  Score=142.73  Aligned_cols=178  Identities=20%  Similarity=0.271  Sum_probs=127.8

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVH   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~   90 (611)
                      ..+++++|++..++.|.+++..           + .. .+++|+||||+|||++++++++.+     +..++.+++++..
T Consensus        18 ~~~~~~~g~~~~~~~l~~~l~~-----------~-~~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   84 (323)
T 1sxj_B           18 QVLSDIVGNKETIDRLQQIAKD-----------G-NM-PHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDR   84 (323)
T ss_dssp             SSGGGCCSCTHHHHHHHHHHHS-----------C-CC-CCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCC
T ss_pred             CCHHHHHCCHHHHHHHHHHHHc-----------C-CC-CeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCcccc
Confidence            5678999999999999988743           1 22 349999999999999999999986     3457777765431


Q ss_pred             cccccchHHHHHHHHHHHHh--hhh-cCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEE
Q 007255           91 KAHVGESEKALREAFSQASS--HAL-SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~~--~~~-~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~  167 (611)
                            ....++..+.....  ... .+++.|++|||+|.+..          ..+..|+..++..      ..++.+|.
T Consensus        85 ------~~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~----------~~~~~L~~~le~~------~~~~~~il  142 (323)
T 1sxj_B           85 ------GIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA----------GAQQALRRTMELY------SNSTRFAF  142 (323)
T ss_dssp             ------SHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCH----------HHHHTTHHHHHHT------TTTEEEEE
T ss_pred             ------ChHHHHHHHHHHHhccccCCCCCceEEEEECcccCCH----------HHHHHHHHHHhcc------CCCceEEE
Confidence                  12334444444331  111 23478999999998854          3456677787763      23577888


Q ss_pred             eecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccc
Q 007255          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGA  231 (611)
Q Consensus       168 ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~  231 (611)
                      +||.+..+.+.+.+  |+. .+.|++|+.+++.++++..+...+.. .+..+..++..+.|....
T Consensus       143 ~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~  204 (323)
T 1sxj_B          143 ACNQSNKIIEPLQS--QCA-ILRYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQ  204 (323)
T ss_dssp             EESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHH
T ss_pred             EeCChhhchhHHHh--hce-EEeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHH
Confidence            88999999999998  875 89999999999999999877543332 223467778877665433

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=99.56  E-value=1.7e-13  Score=142.79  Aligned_cols=188  Identities=18%  Similarity=0.233  Sum_probs=134.1

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---------------   80 (611)
                      ..+++++|+++.++.|...+..            -..+..+||+||+|||||++++++++.++..               
T Consensus        13 ~~~~~~vg~~~~~~~L~~~l~~------------~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~   80 (373)
T 1jr3_A           13 QTFADVVGQEHVLTALANGLSL------------GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCR   80 (373)
T ss_dssp             CSTTTSCSCHHHHHHHHHHHHH------------TCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHH
T ss_pred             CchhhccCcHHHHHHHHHHHHh------------CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHH
Confidence            5678999999999999988743            1234678999999999999999999988642               


Q ss_pred             ---------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh
Q 007255           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (611)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~  151 (611)
                               ++.++...      ......++.++..+......+++.|++|||+|.+..          ..++.|+..++
T Consensus        81 ~~~~~~~~~~~~~~~~~------~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~----------~~~~~Ll~~le  144 (373)
T 1jr3_A           81 EIEQGRFVDLIEIDAAS------RTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSR----------HSFNALLKTLE  144 (373)
T ss_dssp             HHHTSCCSSCEEEETTC------SCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCH----------HHHHHHHHHHH
T ss_pred             HHhccCCCceEEecccc------cCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcH----------HHHHHHHHHHh
Confidence                     12222211      011123455555554444455678999999998843          45677888887


Q ss_pred             cCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCcc
Q 007255          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVG  230 (611)
Q Consensus       152 ~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~~  230 (611)
                      ..      +.++++|++|+.+..+.+.+.+  |+ ..+.+++|+.++..++++.++...+... +..+..++..+.| +.
T Consensus       145 ~~------~~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~l~~~~~~~~l~~~~~~~~~~~~~~a~~~l~~~~~G-~~  214 (373)
T 1jr3_A          145 EP------PEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEG-SL  214 (373)
T ss_dssp             SC------CSSEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHSSS-CH
T ss_pred             cC------CCceEEEEEeCChHhCcHHHHh--he-eEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHCCC-CH
Confidence            52      3357888888888899999988  87 5899999999999999998876544332 2236778888766 45


Q ss_pred             ccHHHHHHHHH
Q 007255          231 ADLEALCREAT  241 (611)
Q Consensus       231 ~dl~~l~~~a~  241 (611)
                      +.+.++++.+.
T Consensus       215 r~~~~~l~~~~  225 (373)
T 1jr3_A          215 RDALSLTDQAI  225 (373)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55666666554

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.55  E-value=9.1e-14  Score=145.46  Aligned_cols=194  Identities=20%  Similarity=0.232  Sum_probs=128.2

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh-----------CCcEEEEccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-----------GAHLTVISPH   87 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l-----------~~~~~~v~~~   87 (611)
                      ++++|.++.++.|.+++.....         -..+.+++|+||||||||++++++++.+           +..++.+++.
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~---------~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~   90 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVK---------NEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCR   90 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHT---------TCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHc---------CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECc
Confidence            7899999999999988754322         1345799999999999999999999988           8889999876


Q ss_pred             ccc-ccc-----------------ccch-HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHH
Q 007255           88 SVH-KAH-----------------VGES-EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFT  148 (611)
Q Consensus        88 ~~~-~~~-----------------~~~~-~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~  148 (611)
                      ... ...                 .+.. ...+..++...     ...+.||+|||+|.+.....      ...  .+..
T Consensus        91 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~~~~~vlilDEi~~l~~~~~------~~~--~l~~  157 (384)
T 2qby_B           91 EVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGT-----RNIRAIIYLDEVDTLVKRRG------GDI--VLYQ  157 (384)
T ss_dssp             HHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHH-----SSSCEEEEEETTHHHHHSTT------SHH--HHHH
T ss_pred             cCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHh-----ccCCCEEEEECHHHhccCCC------Cce--eHHH
Confidence            543 100                 0111 11122222211     12234999999998864321      022  0222


Q ss_pred             HHhcCCCCCCCCCcEEEEEeecCc---ccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcC-C---CCCCcccHHHH
Q 007255          149 LMDSNKPSKTSVPHVVVVASTNRV---DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK-V---PLDANVDLEAI  221 (611)
Q Consensus       149 ~l~~~~~~~~~~~~v~ii~ttn~~---~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~-~---~~~~~~~~~~l  221 (611)
                      ++...       .++.+|++||..   +.+++++.+  ||...+.|++|+.+++.+|++.++.. .   .++ +..++.+
T Consensus       158 l~~~~-------~~~~iI~~t~~~~~~~~l~~~l~s--r~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~-~~~~~~i  227 (384)
T 2qby_B          158 LLRSD-------ANISVIMISNDINVRDYMEPRVLS--SLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYD-DEILSYI  227 (384)
T ss_dssp             HHTSS-------SCEEEEEECSSTTTTTTSCHHHHH--TCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCC-SHHHHHH
T ss_pred             HhcCC-------cceEEEEEECCCchHhhhCHHHHh--cCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcC-HHHHHHH
Confidence            33221       358899999886   678999988  88779999999999999999988753 1   222 2346777


Q ss_pred             HHhccCCc--cccHHHHHHHHHHHH
Q 007255          222 ATSCNGYV--GADLEALCREATMSA  244 (611)
Q Consensus       222 a~~~~g~~--~~dl~~l~~~a~~~a  244 (611)
                      +..+.+..  .+.+.++++.+...+
T Consensus       228 ~~~~~~~~G~~r~a~~~l~~a~~~a  252 (384)
T 2qby_B          228 AAISAKEHGDARKAVNLLFRAAQLA  252 (384)
T ss_dssp             HHHHHTTCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHhccCCHHHHHHHHHHHHHHh
Confidence            77776322  234455666665444

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.55  E-value=1.2e-13  Score=144.53  Aligned_cols=221  Identities=22%  Similarity=0.201  Sum_probs=140.6

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---------CCcEEEEcccc
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---------GAHLTVISPHS   88 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---------~~~~~~v~~~~   88 (611)
                      .++++|.++.++.+..++...+.         ...+.+++|+||||||||++++.+++.+         +..++.+++..
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~~---------~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~   88 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPALR---------GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARH   88 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGTS---------SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTT
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHc---------CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCc
Confidence            37899999999999887643211         1346799999999999999999999988         77888888765


Q ss_pred             ccccc----------------ccchHHH-HHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHh
Q 007255           89 VHKAH----------------VGESEKA-LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (611)
Q Consensus        89 ~~~~~----------------~~~~~~~-l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~  151 (611)
                      .....                .+..... +..++....   ..++++||+|||+|.+....     .....+..++..++
T Consensus        89 ~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~---~~~~~~vlilDEi~~l~~~~-----~~~~~l~~l~~~~~  160 (387)
T 2v1u_A           89 RETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLS---RLRGIYIIVLDEIDFLPKRP-----GGQDLLYRITRINQ  160 (387)
T ss_dssp             SCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHT---TSCSEEEEEEETTTHHHHST-----THHHHHHHHHHGGG
T ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh---ccCCeEEEEEccHhhhcccC-----CCChHHHhHhhchh
Confidence            32210                1111222 223332221   13457899999999885431     01233344444433


Q ss_pred             cCCCCCCCCCcEEEEEeecCc---ccccHHhhccCCcce-EEEccCCCHHHHHHHHHHhhcC--CCC-CCcccHHHHHHh
Q 007255          152 SNKPSKTSVPHVVVVASTNRV---DAIDPALRRSGRFDA-EVEVTVPTAEERFEILKLYTKK--VPL-DANVDLEAIATS  224 (611)
Q Consensus       152 ~~~~~~~~~~~v~ii~ttn~~---~~l~~~l~~~~Rf~~-~i~~~~p~~~~r~~Il~~~~~~--~~~-~~~~~~~~la~~  224 (611)
                      ....    ..++.+|++||.+   +.+++.+.+  ||.. .+.|++|+.+++.+|++..+..  ... -.+..++.++..
T Consensus       161 ~~~~----~~~~~~I~~t~~~~~~~~l~~~l~~--r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~  234 (387)
T 2v1u_A          161 ELGD----RVWVSLVGITNSLGFVENLEPRVKS--SLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAAL  234 (387)
T ss_dssp             CC---------CEEEEECSCSTTSSSSCHHHHT--TTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHH
T ss_pred             hcCC----CceEEEEEEECCCchHhhhCHHHHh--cCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHH
Confidence            2210    2357888999887   688999988  8864 8999999999999999988753  111 122246677777


Q ss_pred             cc---CCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHh
Q 007255          225 CN---GYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARS  270 (611)
Q Consensus       225 ~~---g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~  270 (611)
                      +.   |. .+.+.++++.+...+....        ...++.+++..+..
T Consensus       235 ~~~~~G~-~r~~~~~l~~a~~~a~~~~--------~~~i~~~~v~~a~~  274 (387)
T 2v1u_A          235 AAREHGD-ARRALDLLRVAGEIAERRR--------EERVRREHVYSARA  274 (387)
T ss_dssp             HHSSSCC-HHHHHHHHHHHHHHHHHTT--------CSCBCHHHHHHHHH
T ss_pred             HHHhccC-HHHHHHHHHHHHHHHHHcC--------CCCcCHHHHHHHHH
Confidence            66   43 4556677777765443321        12356666665544

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.54  E-value=3.1e-14  Score=154.59  Aligned_cols=194  Identities=19%  Similarity=0.291  Sum_probs=122.8

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhC-chHHHhcCC---CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLY-SSQAQKLGL---KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~-~~~~~~~g~---~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~   91 (611)
                      ..+++++|++.+++.|.+++...... +..+...|.   ..++++||+||||||||++|+++|++++.+++.+++++...
T Consensus        36 ~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~in~s~~~~  115 (516)
T 1sxj_A           36 TNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRS  115 (516)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCC
T ss_pred             CCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeCCCcch
Confidence            67899999999999999998652111 111112222   25689999999999999999999999999999999987643


Q ss_pred             ccccchH-------HHHHHHHHHHHh-hhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           92 AHVGESE-------KALREAFSQASS-HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        92 ~~~~~~~-------~~l~~~f~~~~~-~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      .......       ..+..+|..+.. .....+++||||||+|.+.....       ..+..|+.+++...      ..+
T Consensus       116 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~-------~~l~~L~~~l~~~~------~~i  182 (516)
T 1sxj_A          116 KTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDR-------GGVGQLAQFCRKTS------TPL  182 (516)
T ss_dssp             HHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTST-------THHHHHHHHHHHCS------SCE
T ss_pred             HHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhH-------HHHHHHHHHHHhcC------CCE
Confidence            2210000       001111111100 01124688999999999876421       22456666766521      134


Q ss_pred             EEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCC--CCCCcccHHHHHHhccC
Q 007255          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV--PLDANVDLEAIATSCNG  227 (611)
Q Consensus       164 ~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~--~~~~~~~~~~la~~~~g  227 (611)
                      ++++++.....+. .+++  | ...+.|++|+.+++.+++...+...  .++.+ .+..++..+.|
T Consensus       183 Ili~~~~~~~~l~-~l~~--r-~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~-~l~~la~~s~G  243 (516)
T 1sxj_A          183 ILICNERNLPKMR-PFDR--V-CLDIQFRRPDANSIKSRLMTIAIREKFKLDPN-VIDRLIQTTRG  243 (516)
T ss_dssp             EEEESCTTSSTTG-GGTT--T-SEEEECCCCCHHHHHHHHHHHHHHHTCCCCTT-HHHHHHHHTTT
T ss_pred             EEEEcCCCCccch-hhHh--c-eEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC
Confidence            5554433333443 3543  4 4589999999999999998876543  33333 47888887755

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=99.54  E-value=5.6e-14  Score=143.04  Aligned_cols=176  Identities=20%  Similarity=0.255  Sum_probs=123.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVH   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~   90 (611)
                      ..+++++|++.+++.|.+.+..             ....++||+||||||||++++++++.+     +..++.+++++..
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   80 (319)
T 2chq_A           14 RTLDEVVGQDEVIQRLKGYVER-------------KNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDER   80 (319)
T ss_dssp             SSGGGSCSCHHHHHHHHTTTTT-------------TCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTT
T ss_pred             CCHHHHhCCHHHHHHHHHHHhC-------------CCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCcccc
Confidence            5678999999999988876532             122359999999999999999999987     3356777776542


Q ss_pred             cccccchHHHHHHHHHHHHhhhh-cCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee
Q 007255           91 KAHVGESEKALREAFSQASSHAL-SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~~~~~-~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt  169 (611)
                      .  .......+....   ..... .+++.|++|||+|.+..          ..+..|+..++..      +.++.+|++|
T Consensus        81 ~--~~~~~~~~~~~~---~~~~~~~~~~~vliiDe~~~l~~----------~~~~~L~~~le~~------~~~~~~i~~~  139 (319)
T 2chq_A           81 G--IDVVRHKIKEFA---RTAPIGGAPFKIIFLDEADALTA----------DAQAALRRTMEMY------SKSCRFILSC  139 (319)
T ss_dssp             C--TTTSSHHHHHHH---HSCCSSSCCCEEEEEETGGGSCH----------HHHHTTGGGTSSS------SSSEEEEEEE
T ss_pred             C--hHHHHHHHHHHH---hcCCCCCCCceEEEEeCCCcCCH----------HHHHHHHHHHHhc------CCCCeEEEEe
Confidence            2  111112222211   11111 24578999999998853          3455666666542      2357888999


Q ss_pred             cCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCC
Q 007255          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGY  228 (611)
Q Consensus       170 n~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~  228 (611)
                      |.+..+.+++.+  |+. .+.|++|+.+++.+++...+...+... +..+..++..+.|.
T Consensus       140 ~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~  196 (319)
T 2chq_A          140 NYVSRIIEPIQS--RCA-VFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGD  196 (319)
T ss_dssp             SCGGGSCHHHHT--TCE-EEECCCCCHHHHHHHHHHHHHTTCCCBCHHHHHHHHHTTTTC
T ss_pred             CChhhcchHHHh--hCe-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Confidence            999999999998  885 899999999999999998887655432 23466777666553

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=99.54  E-value=1.1e-13  Score=134.72  Aligned_cols=203  Identities=13%  Similarity=0.115  Sum_probs=130.5

Q ss_pred             ccccccCC---cHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEccccc
Q 007255           16 KAEEAIGG---NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVISPHSV   89 (611)
Q Consensus        16 ~~~~~i~G---~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~---~~~~~v~~~~~   89 (611)
                      ..|++++|   ++.+++.+..++..             ..+.+++|+||||||||++++++++.+.   ..++.+++.++
T Consensus        25 ~~~~~~~~~~~~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~   91 (242)
T 3bos_A           25 ETFTSYYPAAGNDELIGALKSAASG-------------DGVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGIH   91 (242)
T ss_dssp             CSTTTSCC--CCHHHHHHHHHHHHT-------------CSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGG
T ss_pred             CChhhccCCCCCHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHH
Confidence            46778886   34666666665432             1457999999999999999999998874   67788887776


Q ss_pred             ccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE-EEEEe
Q 007255           90 HKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV-VVVAS  168 (611)
Q Consensus        90 ~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v-~ii~t  168 (611)
                      ......        .+..      ..++.+|+|||+|.+....        ..+..++..++......    .+ +++++
T Consensus        92 ~~~~~~--------~~~~------~~~~~vliiDe~~~~~~~~--------~~~~~l~~~l~~~~~~~----~~~ii~~~  145 (242)
T 3bos_A           92 ASISTA--------LLEG------LEQFDLICIDDVDAVAGHP--------LWEEAIFDLYNRVAEQK----RGSLIVSA  145 (242)
T ss_dssp             GGSCGG--------GGTT------GGGSSEEEEETGGGGTTCH--------HHHHHHHHHHHHHHHHC----SCEEEEEE
T ss_pred             HHHHHH--------HHHh------ccCCCEEEEeccccccCCH--------HHHHHHHHHHHHHHHcC----CCeEEEEc
Confidence            543211        1110      1247799999999885421        22344444444321111    23 44444


Q ss_pred             ecCcc---cccHHhhccCCcc--eEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCCccccHHHHHHHHHH
Q 007255          169 TNRVD---AIDPALRRSGRFD--AEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREATM  242 (611)
Q Consensus       169 tn~~~---~l~~~l~~~~Rf~--~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~~~~dl~~l~~~a~~  242 (611)
                      +..+.   .+++++.+  ||.  ..+.+++|+.+++.++++.++...+... +..++.++..+.| +.+.+.++++.+..
T Consensus       146 ~~~~~~~~~~~~~l~~--r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~l~~~l~~~~~  222 (242)
T 3bos_A          146 SASPMEAGFVLPDLVS--RMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQLPEDVGRFLLNRMAR-DLRTLFDVLDRLDK  222 (242)
T ss_dssp             SSCTTTTTCCCHHHHH--HHHHSEEEECCCCCGGGHHHHHHHHHHHTTCCCCHHHHHHHHHHTTT-CHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHhhhhhhh--HhhcCceEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccC-CHHHHHHHHHHHHH
Confidence            44443   45688888  774  7899999999999999999886544332 2346777777765 56777777777766


Q ss_pred             HHhhhcccccccccccchhHHHHHHHH
Q 007255          243 SAVKRSSDANECAGVLSVTMEDWRHAR  269 (611)
Q Consensus       243 ~a~~r~~~~~~~~~~~~v~~ed~~~a~  269 (611)
                      .+....         ..++.+++..+.
T Consensus       223 ~a~~~~---------~~It~~~v~~~l  240 (242)
T 3bos_A          223 ASMVHQ---------RKLTIPFVKEML  240 (242)
T ss_dssp             HHHHHT---------CCCCHHHHHHHH
T ss_pred             HHHHhC---------CCCcHHHHHHHh
Confidence            553321         136666666543

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=99.54  E-value=7.9e-14  Score=142.90  Aligned_cols=174  Identities=16%  Similarity=0.157  Sum_probs=126.2

Q ss_pred             hhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE----------------------
Q 007255          295 LRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF----------------------  352 (611)
Q Consensus       295 ~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~----------------------  352 (611)
                      +++..+.+...+..            .+.++++||+||||+|||++|+++|+.+.+..                      
T Consensus         7 ~~~~~~~l~~~i~~------------~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~   74 (334)
T 1a5t_A            7 LRPDFEKLVASYQA------------GRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHP   74 (334)
T ss_dssp             GHHHHHHHHHHHHT------------TCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCT
T ss_pred             hHHHHHHHHHHHHc------------CCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            45566667666652            25567899999999999999999999986532                      


Q ss_pred             --EeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC
Q 007255          353 --FSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ  426 (611)
Q Consensus       353 --~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  426 (611)
                        ..+++.+-   ........++.+.+.+..    ....|++|||+|.+.              ....+.|++.|+  ++
T Consensus        75 d~~~~~~~~~---~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~--------------~~a~naLLk~lE--ep  135 (334)
T 1a5t_A           75 DYYTLAPEKG---KNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLT--------------DAAANALLKTLE--EP  135 (334)
T ss_dssp             TEEEECCCTT---CSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBC--------------HHHHHHHHHHHT--SC
T ss_pred             CEEEEecccc---CCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhcC--------------HHHHHHHHHHhc--CC
Confidence              22222100   011223456677666543    235699999999882              346789999998  57


Q ss_pred             CCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHH
Q 007255          427 AKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCRE  506 (611)
Q Consensus       427 ~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~  506 (611)
                      ++++++|++||.++.+.+++++  |+. .+.|++|+.++..++++...    ..++..+..+++.+.| +.+.+.++++.
T Consensus       136 ~~~~~~Il~t~~~~~l~~ti~S--Rc~-~~~~~~~~~~~~~~~L~~~~----~~~~~~~~~l~~~s~G-~~r~a~~~l~~  207 (334)
T 1a5t_A          136 PAETWFFLATREPERLLATLRS--RCR-LHYLAPPPEQYAVTWLSREV----TMSQDALLAALRLSAG-SPGAALALFQG  207 (334)
T ss_dssp             CTTEEEEEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHC----CCCHHHHHHHHHHTTT-CHHHHHHTTSS
T ss_pred             CCCeEEEEEeCChHhCcHHHhh--cce-eeeCCCCCHHHHHHHHHHhc----CCCHHHHHHHHHHcCC-CHHHHHHHhcc
Confidence            7789999999999999999998  886 79999999999999998654    2234556788888877 66666666554


Q ss_pred             H
Q 007255          507 A  507 (611)
Q Consensus       507 a  507 (611)
                      .
T Consensus       208 ~  208 (334)
T 1a5t_A          208 D  208 (334)
T ss_dssp             H
T ss_pred             c
Confidence            3

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.54  E-value=9.5e-14  Score=143.54  Aligned_cols=187  Identities=20%  Similarity=0.236  Sum_probs=129.7

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC------CcEEEEccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG------AHLTVISPHSV   89 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~------~~~~~v~~~~~   89 (611)
                      ..+++++|++++++.|..++..             ....+++|+||||||||++++++++.++      ..++.+++++.
T Consensus        34 ~~~~~i~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~  100 (353)
T 1sxj_D           34 KNLDEVTAQDHAVTVLKKTLKS-------------ANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDE  100 (353)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTC-------------TTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSC
T ss_pred             CCHHHhhCCHHHHHHHHHHHhc-------------CCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccc
Confidence            6689999999999998887632             1224599999999999999999999864      35777877653


Q ss_pred             ccccccchHHHHHHHHHHHHhh------------hhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC
Q 007255           90 HKAHVGESEKALREAFSQASSH------------ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK  157 (611)
Q Consensus        90 ~~~~~~~~~~~l~~~f~~~~~~------------~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  157 (611)
                      ..      ...++..+......            .....+.||+|||+|.+.+          ..+..|+..++....  
T Consensus       101 ~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~----------~~~~~Ll~~le~~~~--  162 (353)
T 1sxj_D          101 RG------ISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTA----------DAQSALRRTMETYSG--  162 (353)
T ss_dssp             CC------HHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCH----------HHHHHHHHHHHHTTT--
T ss_pred             cc------hHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCH----------HHHHHHHHHHHhcCC--
Confidence            21      11122222111111            1123467999999998854          456778888886432  


Q ss_pred             CCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccCCccccHHHH
Q 007255          158 TSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEAL  236 (611)
Q Consensus       158 ~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g~~~~dl~~l  236 (611)
                          +..+|.++|.+..+++++++  |+. .+.+++|+.++...+++..+...... .+..++.++..+.|.. +.+.++
T Consensus       163 ----~~~~il~~~~~~~l~~~l~s--R~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~-r~~~~~  234 (353)
T 1sxj_D          163 ----VTRFCLICNYVTRIIDPLAS--QCS-KFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDL-RRGITL  234 (353)
T ss_dssp             ----TEEEEEEESCGGGSCHHHHH--HSE-EEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSCH-HHHHHH
T ss_pred             ----CceEEEEeCchhhCcchhhc--cCc-eEEeCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCH-HHHHHH
Confidence                45677788999999999998  885 89999999999999999887654432 2334788888777653 333344


Q ss_pred             HHHHH
Q 007255          237 CREAT  241 (611)
Q Consensus       237 ~~~a~  241 (611)
                      ++.+.
T Consensus       235 l~~~~  239 (353)
T 1sxj_D          235 LQSAS  239 (353)
T ss_dssp             HHHTH
T ss_pred             HHHHH
Confidence            44433

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.54  E-value=1.7e-14  Score=154.12  Aligned_cols=202  Identities=19%  Similarity=0.178  Sum_probs=123.9

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCC--cEEeec-----chhhccc
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA--SFFSLS-----GAELYSM  363 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~--~~~~~~-----~~~~~~~  363 (611)
                      .++|++++++.+...+..               ..++||+||||||||++|+++|..++.  +|..++     ++++.+.
T Consensus        23 ~ivGq~~~i~~l~~al~~---------------~~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~~t~~dL~G~   87 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALS---------------GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGP   87 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHH---------------TCEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTTCCHHHHHCC
T ss_pred             hhHHHHHHHHHHHHHHhc---------------CCeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhcCCHHHhcCc
Confidence            477899888877766542               247999999999999999999998843  333332     2444443


Q ss_pred             cccchHHHHHHHHHHHHhc---CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC--------CCCCCeEE
Q 007255          364 YVGESEALLRNTFQRARLA---APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL--------EQAKGILV  432 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~---~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~--------~~~~~~~v  432 (611)
                      +.+..... ...|..+...   .++|+|||||+.+              .....+.|+..|+..        ...+..++
T Consensus        88 ~~~~~~~~-~g~~~~~~~g~l~~~~IL~IDEI~r~--------------~~~~q~~LL~~lee~~v~i~G~~~~~~~~~i  152 (500)
T 3nbx_X           88 LSIQALKD-EGRYERLTSGYLPEAEIVFLDEIWKA--------------GPAILNTLLTAINERQFRNGAHVEKIPMRLL  152 (500)
T ss_dssp             BC-----------CBCCTTSGGGCSEEEEESGGGC--------------CHHHHHHHHHHHHSSEEECSSSEEECCCCEE
T ss_pred             ccHHHHhh-chhHHhhhccCCCcceeeeHHhHhhh--------------cHHHHHHHHHHHHHHhccCCCCcCCcchhhh
Confidence            33322111 1112111111   4679999999865              256778888888631        11122345


Q ss_pred             EEecCCCcc---cchhccCCCCccceeecCCCCH-HHHHHHHHHHhcC-------------------------CCCCCcc
Q 007255          433 LAATNRPHA---IDAALMRPGRFDLVLYVPPPDL-EARHEILRVHTRN-------------------------MKVGDDV  483 (611)
Q Consensus       433 I~~tn~~~~---ld~al~r~gRf~~~i~~~~p~~-~~r~~il~~~~~~-------------------------~~~~~~~  483 (611)
                      |+|||.+..   ..+++++  ||...+.+|.|+. +++..|++.....                         ..+. +.
T Consensus       153 I~ATN~lpe~~~~~~aLld--RF~~~i~v~~p~~~ee~~~IL~~~~~~~~~~~~~~~~~~~e~l~~~~~~~~~v~v~-d~  229 (500)
T 3nbx_X          153 VAASNELPEADSSLEALYD--RMLIRLWLDKVQDKANFRSMLTSQQDENDNPVPDALQVTDEEYERWQKEIGEITLP-DH  229 (500)
T ss_dssp             EEEESSCCCTTCTTHHHHT--TCCEEEECCSCCCHHHHHHHHTCCCCTTSCCSCTTTSBCHHHHHHHHHHHTTCBCC-HH
T ss_pred             hhccccCCCccccHHHHHH--HHHHHHHHHHhhhhhhHHHHHhcccccCCCCCCccceecHHHHHHHHhcCCcccCc-hH
Confidence            777775332   4458898  9999999999987 7788998754321                         1111 11


Q ss_pred             cHHHHHHhC---------CCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHH
Q 007255          484 DLRSIAEET---------ELFTGAELEGLCREAGIVALREDISATAVRNRHFQ  527 (611)
Q Consensus       484 ~~~~la~~~---------~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~  527 (611)
                      -++.++...         .|.|++.+..+++.|...|..+.  ...++.+|+.
T Consensus       230 v~e~i~~l~~~lr~~r~~~~iS~R~~~~llr~A~A~A~l~g--r~~Vt~eDv~  280 (500)
T 3nbx_X          230 VFELIFMLRQQLDKLPDAPYVSDRRWKKAIRLLQASAFFSG--RSAVAPVDLI  280 (500)
T ss_dssp             HHHHHHHHHHHHHHCSSSCCCCHHHHHHHHHHHHHHHHHTT--CSBCCGGGGG
T ss_pred             HHHHHHHHHHHhhcCCCCCccchhHHHHHHHHHHHHHhhcC--CccccchHHH
Confidence            133343332         48899999999998877776554  2234444444

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=99.52  E-value=8.3e-13  Score=163.83  Aligned_cols=354  Identities=17%  Similarity=0.232  Sum_probs=189.5

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR  132 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~  132 (611)
                      ..++++.||+|||||++++++|+.+|.+++.++|++-.+      ...+..+|..+...     ++++++||+|.+.+. 
T Consensus       645 ~~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~nc~e~ld------~~~lg~~~~g~~~~-----Gaw~~~DE~nr~~~e-  712 (2695)
T 4akg_A          645 KYGGCFFGPAGTGKTETVKAFGQNLGRVVVVFNCDDSFD------YQVLSRLLVGITQI-----GAWGCFDEFNRLDEK-  712 (2695)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHTTTCCCEEEETTSSCC------HHHHHHHHHHHHHH-----TCEEEEETTTSSCHH-
T ss_pred             CCCCcccCCCCCCcHHHHHHHHHHhCCcEEEEECCCCCC------hhHhhHHHHHHHhc-----CCEeeehhhhhcChH-
Confidence            468999999999999999999999999999999986433      23456666666544     679999999987541 


Q ss_pred             CCCchhhHHHHHH---HHHHHhcCC-------CCCCCCCcEEEEEeecC----cccccHHhhccCCcceEEEccCCCHHH
Q 007255          133 DHRREQDVRIASQ---LFTLMDSNK-------PSKTSVPHVVVVASTNR----VDAIDPALRRSGRFDAEVEVTVPTAEE  198 (611)
Q Consensus       133 ~~~~~~~~~~~~~---ll~~l~~~~-------~~~~~~~~v~ii~ttn~----~~~l~~~l~~~~Rf~~~i~~~~p~~~~  198 (611)
                           ....+..+   +...+....       ......+++.+++|+|+    ...+++++++  || ..+.+..|+.+.
T Consensus       713 -----vLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk~--~F-r~v~m~~Pd~~~  784 (2695)
T 4akg_A          713 -----VLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKK--SF-REFSMKSPQSGT  784 (2695)
T ss_dssp             -----HHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHHT--TE-EEEECCCCCHHH
T ss_pred             -----HHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHHh--he-EEEEeeCCCHHH
Confidence                 11111111   233332221       11112345788999995    3479999998  88 489999999999


Q ss_pred             HHHHHHHhhcCCCCCCc--cc----HHHHHHhccC-----CccccHHHHHHHHHHHHhhhccccc------ccccccchh
Q 007255          199 RFEILKLYTKKVPLDAN--VD----LEAIATSCNG-----YVGADLEALCREATMSAVKRSSDAN------ECAGVLSVT  261 (611)
Q Consensus       199 r~~Il~~~~~~~~~~~~--~~----~~~la~~~~g-----~~~~dl~~l~~~a~~~a~~r~~~~~------~~~~~~~v~  261 (611)
                      ..+|+-.... +.....  ..    +..+.++...     +.-+++..++..|.........+..      .......+.
T Consensus       785 i~ei~l~s~G-f~~a~~la~kiv~~~~l~~e~ls~q~hydfglRalksvL~~ag~lkr~~~~e~~~l~~al~~~~lpk~~  863 (2695)
T 4akg_A          785 IAEMILQIMG-FEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSPLISEFGEGEKTVVESLKRVILPSLG  863 (2695)
T ss_dssp             HHHHHHHHHH-CSSHHHHHHHHHHHHHHHHHHSCCCTTCCCSHHHHHHHHHHHHHHHHHSCSSHHHHHHHHHHHTGGGCC
T ss_pred             HHHHHHHhcC-CCchHHHHHHHHHHHHHHHHHhCcCCcccccHHHHHHHHHHHHHhhccCCcHHHHHHHHHHHhccccCc
Confidence            8888643321 111100  00    1222222222     4456677766655432211100000      000000111


Q ss_pred             HHH---HHHHHhccCCcccccccccCCCcccccccchhHHHHHHHHHhhc-cCCC--------hhHHhhcCCCCCCCcce
Q 007255          262 MED---WRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW-PIKH--------STAFSRLGISPVRGALL  329 (611)
Q Consensus       262 ~ed---~~~a~~~i~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~-~~~~--------~~~~~~~~~~~~~~~Ll  329 (611)
                      .+|   |......+.|...      .|       .+...+.+.+.+.+.. .+..        .+.+.-+  ...+|++|
T Consensus       864 ~~D~~lf~~li~dlFp~~~------~~-------~~~~~l~~~i~~~~~~~~l~~~~~~~~K~~ql~e~~--~~r~gvml  928 (2695)
T 4akg_A          864 DTDELVFKDELSKIFDSAG------TP-------LNSKAIVQCLKDAGQRSGFSMSEEFLKKCMQFYYMQ--KTQQALIL  928 (2695)
T ss_dssp             HHHHHHHHHHHHHHCCCCS------CC-------SSSSHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHH--HHCSEEEE
T ss_pred             hhhHHHHHHHHHHhCCCCC------CC-------CChHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHH--HhcceEEE
Confidence            122   2222233333221      11       2233344444443321 1111        1111111  23478999


Q ss_pred             eCCCCCChHHHHHHHHHHh----CC--cEEeecch-----hhccccccc----hHHHHHHHHHHHHhcC-------CcEE
Q 007255          330 HGPPGCSKTTLAKAAAHAA----EA--SFFSLSGA-----ELYSMYVGE----SEALLRNTFQRARLAA-------PSII  387 (611)
Q Consensus       330 ~Gp~G~GKT~la~ala~~~----~~--~~~~~~~~-----~~~~~~~g~----~~~~~~~~~~~a~~~~-------p~il  387 (611)
                      +||||||||++.+.+|..+    +.  .++.+++.     ++++.+...    .++.+..+++.+....       ..-|
T Consensus       929 vGptgsGKTt~~~~La~al~~l~~~~~~~~~inpk~~t~~el~G~~d~~t~eW~DGils~~~R~~~~~~~~~~~~~~~Wi 1008 (2695)
T 4akg_A          929 VGKAGCGKTATWKTVIDAMAIFDGHANVVYVIDTKVLTKESLYGSMLKATLEWRDGLFTSILRRVNDDITGTFKNSRIWV 1008 (2695)
T ss_dssp             ECSTTSSHHHHHHHHHHHHHHHTCCEEEEEEECTTTSCHHHHTTEECTTTCCEECCSHHHHHHHHHTCCCSSCSSEEEEE
T ss_pred             ECCCCCCHHHHHHHHHHHHHHhcCCCceEEEeCCCCCCHHHhcceecCCCCeEecChHHHHHHHHHhccccccCCCCeEE
Confidence            9999999999999999775    22  34455554     344432211    1234445555443211       2367


Q ss_pred             EEcccccccccCCCCCCCCcchhHHHHHHHHHHhcC-----------CCCCCCeEEEEecCCCcccchhccCCCCcccee
Q 007255          388 FFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG-----------LEQAKGILVLAATNRPHAIDAALMRPGRFDLVL  456 (611)
Q Consensus       388 ~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~-----------~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i  456 (611)
                      ++|--                .....+..|=..||.           +.-++++-+|+-+.......||-.+  |+. .|
T Consensus      1009 vfDG~----------------vD~~WIE~LNsVLDDNk~L~L~ngErI~l~~~~~llFEv~dL~~ASPATVS--RcG-mv 1069 (2695)
T 4akg_A         1009 VFDSD----------------LDPEYVEAMNSVLDDNKILTLPNGERLPIPPNFRILFETDNLDHTTPATIT--RCG-LL 1069 (2695)
T ss_dssp             EECSC----------------CCHHHHHTTHHHHSTTCEEECSSSCEEECCSSCEEEEEESCCTTSCHHHHH--HSE-EE
T ss_pred             EECCC----------------CCHHHHHHHHHHhcCCCccccCCCCEEecCCCcEEEEEecccccCCcccee--eee-EE
Confidence            77710                112233333333442           1112345566667777778888877  777 77


Q ss_pred             ecCCC
Q 007255          457 YVPPP  461 (611)
Q Consensus       457 ~~~~p  461 (611)
                      ++.+-
T Consensus      1070 y~~~~ 1074 (2695)
T 4akg_A         1070 WFSTD 1074 (2695)
T ss_dssp             ECCSC
T ss_pred             EecCC
Confidence            77643

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=99.49  E-value=1.1e-13  Score=137.19  Aligned_cols=202  Identities=12%  Similarity=0.166  Sum_probs=117.5

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVISPHSVHKAH   93 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~---~~~~~v~~~~~~~~~   93 (611)
                      +|++++|.+..++.+.+.+....           ..+.++||+||||||||++++++++.+.   .+++.++++.+....
T Consensus         4 ~f~~~ig~~~~~~~~~~~~~~~~-----------~~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~~~   72 (265)
T 2bjv_A            4 YKDNLLGEANSFLEVLEQVSHLA-----------PLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENL   72 (265)
T ss_dssp             ------CCCHHHHHHHHHHHHHT-----------TSCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCHHH
T ss_pred             ccccceeCCHHHHHHHHHHHHHh-----------CCCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCChhH
Confidence            57889999999999887765421           2357999999999999999999999875   679999988763211


Q ss_pred             ccchHHHH----HHHHHHHHh----hhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCC
Q 007255           94 VGESEKAL----REAFSQASS----HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSV  160 (611)
Q Consensus        94 ~~~~~~~l----~~~f~~~~~----~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~~~  160 (611)
                      .   ...+    ...|.....    ......+++|||||+|.+.+          ..+..|+..++.....     ....
T Consensus        73 ~---~~~l~g~~~~~~~g~~~~~~~~l~~a~~~~l~lDEi~~l~~----------~~q~~Ll~~l~~~~~~~~g~~~~~~  139 (265)
T 2bjv_A           73 L---DSELFGHEAGAFTGAQKRHPGRFERADGGTLFLDELATAPM----------MVQEKLLRVIEYGELERVGGSQPLQ  139 (265)
T ss_dssp             H---HHHHHCCC---------CCCCHHHHTTTSEEEEESGGGSCH----------HHHHHHHHHHHHCEECCCCC--CEE
T ss_pred             H---HHHhcCCcccccccccccccchhhhcCCcEEEEechHhcCH----------HHHHHHHHHHHhCCeecCCCccccc
Confidence            0   0000    001110000    00012367999999998854          5577888888753210     0112


Q ss_pred             CcEEEEEeecCc-------ccccHHhhccCCcc-eEEEccCCCH--HHHHHHHHHhhcC----CCCCC--cc---cHHHH
Q 007255          161 PHVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPTA--EERFEILKLYTKK----VPLDA--NV---DLEAI  221 (611)
Q Consensus       161 ~~v~ii~ttn~~-------~~l~~~l~~~~Rf~-~~i~~~~p~~--~~r~~Il~~~~~~----~~~~~--~~---~~~~l  221 (611)
                      .++.+|++||..       ..+++++.+  ||. ..+.+|+++.  ++...++++++..    .....  ..   .++.+
T Consensus       140 ~~~~iI~atn~~~~~~~~~~~~~~~L~~--Rl~~~~i~lp~L~~R~~di~~l~~~~l~~~~~~~~~~~~~~~~~~a~~~L  217 (265)
T 2bjv_A          140 VNVRLVCATNADLPAMVNEGTFRADLLD--ALAFDVVQLPPLRERESDIMLMAEYFAIQMCREIKLPLFPGFTERARETL  217 (265)
T ss_dssp             CCCEEEEEESSCHHHHHHHTSSCHHHHH--HHCSEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCSSCCCBCHHHHHHH
T ss_pred             CCeEEEEecCcCHHHHHHcCCccHHHHH--hhcCcEEeCCChhhhhHHHHHHHHHHHHHHHHHhCCCcccCcCHHHHHHH
Confidence            357889999874       246788887  885 4566666654  5566665554432    22211  11   23444


Q ss_pred             HHhccCCccccHHHHHHHHHHHH
Q 007255          222 ATSCNGYVGADLEALCREATMSA  244 (611)
Q Consensus       222 a~~~~g~~~~dl~~l~~~a~~~a  244 (611)
                      ....-..+.+++.++++.++..+
T Consensus       218 ~~~~~~gn~reL~~~l~~~~~~~  240 (265)
T 2bjv_A          218 LNYRWPGNIRELKNVVERSVYRH  240 (265)
T ss_dssp             HHSCCTTHHHHHHHHHHHHHHHH
T ss_pred             HhCCCCCCHHHHHHHHHHHHHhC
Confidence            33322234567778877766443

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.48  E-value=1.3e-12  Score=134.45  Aligned_cols=174  Identities=21%  Similarity=0.291  Sum_probs=121.7

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEcccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~-----~~~~v~~~~~~   90 (611)
                      ..+++++|++.+++.|...+..           | .. .+++|+||||||||++++++|+.+..     .+..+++++..
T Consensus        22 ~~~~~~~g~~~~~~~L~~~i~~-----------g-~~-~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~   88 (340)
T 1sxj_C           22 ETLDEVYGQNEVITTVRKFVDE-----------G-KL-PHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDR   88 (340)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHT-----------T-CC-CCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCC
T ss_pred             CcHHHhcCcHHHHHHHHHHHhc-----------C-CC-ceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccc
Confidence            6789999999999999887743           1 12 24999999999999999999998743     35666665421


Q ss_pred             cccccchHHHHHHHHHHHHhh--hhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEe
Q 007255           91 KAHVGESEKALREAFSQASSH--ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~~~--~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t  168 (611)
                          +  ...++.........  .....+.|++|||+|.+..          ..++.|+..++...      ..+.+|.+
T Consensus        89 ----~--~~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~~----------~~~~~L~~~le~~~------~~~~~il~  146 (340)
T 1sxj_C           89 ----G--IDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTN----------AAQNALRRVIERYT------KNTRFCVL  146 (340)
T ss_dssp             ----S--HHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCH----------HHHHHHHHHHHHTT------TTEEEEEE
T ss_pred             ----c--HHHHHHHHHHHHhhcccCCCCceEEEEeCCCCCCH----------HHHHHHHHHHhcCC------CCeEEEEE
Confidence                1  22233333322211  1123468999999998843          45677888888642      24677888


Q ss_pred             ecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccC
Q 007255          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNG  227 (611)
Q Consensus       169 tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g  227 (611)
                      ||.+..+.+++++  |+. .+.|++++.++..+++...+......- +.....++..+.|
T Consensus       147 ~n~~~~i~~~i~s--R~~-~~~~~~l~~~~~~~~l~~~~~~~~~~i~~~~~~~i~~~s~G  203 (340)
T 1sxj_C          147 ANYAHKLTPALLS--QCT-RFRFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNG  203 (340)
T ss_dssp             ESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTT
T ss_pred             ecCccccchhHHh--hce-eEeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Confidence            9999999999998  885 789999999999999998875433322 2235566665544

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.48  E-value=1.8e-12  Score=135.73  Aligned_cols=220  Identities=17%  Similarity=0.120  Sum_probs=141.4

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCc--eEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEcccccccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPR--GLLLYGPPGTGKTSLVRAVVREC----GAHLTVISPHSVHKA   92 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~--~iLl~Gp~GtGKT~la~~la~~l----~~~~~~v~~~~~~~~   92 (611)
                      ++++|.++.++.|..++......         ..+.  +++|+||||||||++++++++.+    +..++.+++......
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~---------~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~   87 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRN---------PGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNF   87 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHS---------TTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcC---------CCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCH
Confidence            78999999999999988653221         1234  89999999999999999999998    567888886543210


Q ss_pred             ----------------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC
Q 007255           93 ----------------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS  156 (611)
Q Consensus        93 ----------------~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~  156 (611)
                                      ..+.....+...+.....  ...+|.||+|||+|.+.          ...+..|+.+++.....
T Consensus        88 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~--~~~~~~vlilDE~~~l~----------~~~~~~L~~~~~~~~~~  155 (389)
T 1fnn_A           88 TAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLR--ERDLYMFLVLDDAFNLA----------PDILSTFIRLGQEADKL  155 (389)
T ss_dssp             HHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHH--HTTCCEEEEEETGGGSC----------HHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHh--hcCCeEEEEEECccccc----------hHHHHHHHHHHHhCCCC
Confidence                            011111111111111111  12458899999999882          25567777777542210


Q ss_pred             CCCCCcEEEEEeecCc---ccccHHhhccCCcce-EEEccCCCHHHHHHHHHHhhcCC---CCCCcccHHHHHHhccCC-
Q 007255          157 KTSVPHVVVVASTNRV---DAIDPALRRSGRFDA-EVEVTVPTAEERFEILKLYTKKV---PLDANVDLEAIATSCNGY-  228 (611)
Q Consensus       157 ~~~~~~v~ii~ttn~~---~~l~~~l~~~~Rf~~-~i~~~~p~~~~r~~Il~~~~~~~---~~~~~~~~~~la~~~~g~-  228 (611)
                      .  ..++.+|+++|.+   +.+++.+.+  ||.. .+.|++++.++..++++..+...   ..-.+..++.++..+.+. 
T Consensus       156 ~--~~~~~iI~~~~~~~~~~~l~~~~~~--r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  231 (389)
T 1fnn_A          156 G--AFRIALVIVGHNDAVLNNLDPSTRG--IMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQT  231 (389)
T ss_dssp             S--SCCEEEEEEESSTHHHHTSCHHHHH--HHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSS
T ss_pred             C--cCCEEEEEEECCchHHHHhCHHhhh--cCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcc
Confidence            0  0257888888877   578888887  7764 79999999999999999877541   112233477777777422 


Q ss_pred             -------ccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhc
Q 007255          229 -------VGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (611)
Q Consensus       229 -------~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~  271 (611)
                             ..+.+.++++.+...+.....        ..++.+++..+...
T Consensus       232 ~~~~~~G~~r~~~~~l~~a~~~a~~~~~--------~~i~~~~v~~~~~~  273 (389)
T 1fnn_A          232 PLDTNRGDARLAIDILYRSAYAAQQNGR--------KHIAPEDVRKSSKE  273 (389)
T ss_dssp             TTCTTSCCHHHHHHHHHHHHHHHHHTTC--------SSCCHHHHHHHHHH
T ss_pred             cCCCCCCcHHHHHHHHHHHHHHHHHhCC--------CCcCHHHHHHHHHH
Confidence                   345566777777655543221        23556666655443

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=99.47  E-value=2.1e-12  Score=132.26  Aligned_cols=170  Identities=19%  Similarity=0.193  Sum_probs=121.1

Q ss_pred             CcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc----------------------
Q 007255           23 GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH----------------------   80 (611)
Q Consensus        23 G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~----------------------   80 (611)
                      .+++..+.|...+..            -+.+..+||+||||+|||++++++|+.+.+.                      
T Consensus         6 w~~~~~~~l~~~i~~------------~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~   73 (334)
T 1a5t_A            6 WLRPDFEKLVASYQA------------GRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTH   73 (334)
T ss_dssp             GGHHHHHHHHHHHHT------------TCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCC
T ss_pred             chHHHHHHHHHHHHc------------CCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCC
Confidence            467777777776643            1345679999999999999999999988642                      


Q ss_pred             --EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCC
Q 007255           81 --LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKT  158 (611)
Q Consensus        81 --~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  158 (611)
                        +..+++..-   ........++.+.+.+...+..++..|++|||+|.|..          ..++.|+..+++      
T Consensus        74 ~d~~~~~~~~~---~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~----------~a~naLLk~lEe------  134 (334)
T 1a5t_A           74 PDYYTLAPEKG---KNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTD----------AAANALLKTLEE------  134 (334)
T ss_dssp             TTEEEECCCTT---CSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCH----------HHHHHHHHHHTS------
T ss_pred             CCEEEEecccc---CCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhcCH----------HHHHHHHHHhcC------
Confidence              233332200   01122345667776665554455678999999999853          457788999886      


Q ss_pred             CCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCcc
Q 007255          159 SVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVG  230 (611)
Q Consensus       159 ~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~  230 (611)
                      ++.++++|.+|+.++.+.+.+++  |+. .+.|++|+.++..++++...   .. .+..+..++..++|..+
T Consensus       135 p~~~~~~Il~t~~~~~l~~ti~S--Rc~-~~~~~~~~~~~~~~~L~~~~---~~-~~~~~~~l~~~s~G~~r  199 (334)
T 1a5t_A          135 PPAETWFFLATREPERLLATLRS--RCR-LHYLAPPPEQYAVTWLSREV---TM-SQDALLAALRLSAGSPG  199 (334)
T ss_dssp             CCTTEEEEEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHC---CC-CHHHHHHHHHHTTTCHH
T ss_pred             CCCCeEEEEEeCChHhCcHHHhh--cce-eeeCCCCCHHHHHHHHHHhc---CC-CHHHHHHHHHHcCCCHH
Confidence            23467888889999999999998  884 79999999999999998765   22 23345677777766443

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=99.47  E-value=1e-13  Score=137.35  Aligned_cols=195  Identities=17%  Similarity=0.142  Sum_probs=114.0

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC---CcEEeecchhhccc
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE---ASFFSLSGAELYSM  363 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~---~~~~~~~~~~~~~~  363 (611)
                      .+|++++|.+...+.+.+.+....           ..+.++||+||||||||++|++++..+.   .+++.++++.+...
T Consensus         3 ~~f~~~ig~~~~~~~~~~~~~~~~-----------~~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~~   71 (265)
T 2bjv_A            3 EYKDNLLGEANSFLEVLEQVSHLA-----------PLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNEN   71 (265)
T ss_dssp             -------CCCHHHHHHHHHHHHHT-----------TSCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCHH
T ss_pred             cccccceeCCHHHHHHHHHHHHHh-----------CCCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCChh
Confidence            368889999888888777665321           2346799999999999999999999874   68999998876321


Q ss_pred             c-----ccchH----HH---HHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC------
Q 007255          364 Y-----VGESE----AL---LRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE------  425 (611)
Q Consensus       364 ~-----~g~~~----~~---~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~------  425 (611)
                      .     .|...    ..   ....+.   ...+++|||||+|.+.              ......|+..|+...      
T Consensus        72 ~~~~~l~g~~~~~~~g~~~~~~~~l~---~a~~~~l~lDEi~~l~--------------~~~q~~Ll~~l~~~~~~~~g~  134 (265)
T 2bjv_A           72 LLDSELFGHEAGAFTGAQKRHPGRFE---RADGGTLFLDELATAP--------------MMVQEKLLRVIEYGELERVGG  134 (265)
T ss_dssp             HHHHHHHCCC---------CCCCHHH---HTTTSEEEEESGGGSC--------------HHHHHHHHHHHHHCEECCCCC
T ss_pred             HHHHHhcCCcccccccccccccchhh---hcCCcEEEEechHhcC--------------HHHHHHHHHHHHhCCeecCCC
Confidence            1     01000    00   001121   2245699999999873              345567777776321      


Q ss_pred             ---CCCCeEEEEecCCC-c------ccchhccCCCCcc-ceeecCCCCH--HHHHHHHHHHh----cCCCC-----CCcc
Q 007255          426 ---QAKGILVLAATNRP-H------AIDAALMRPGRFD-LVLYVPPPDL--EARHEILRVHT----RNMKV-----GDDV  483 (611)
Q Consensus       426 ---~~~~~~vI~~tn~~-~------~ld~al~r~gRf~-~~i~~~~p~~--~~r~~il~~~~----~~~~~-----~~~~  483 (611)
                         ...++.+|+|||.+ .      .+++++.+  ||. ..+.+|+.+.  ++...+++.++    +....     .++.
T Consensus       135 ~~~~~~~~~iI~atn~~~~~~~~~~~~~~~L~~--Rl~~~~i~lp~L~~R~~di~~l~~~~l~~~~~~~~~~~~~~~~~~  212 (265)
T 2bjv_A          135 SQPLQVNVRLVCATNADLPAMVNEGTFRADLLD--ALAFDVVQLPPLRERESDIMLMAEYFAIQMCREIKLPLFPGFTER  212 (265)
T ss_dssp             --CEECCCEEEEEESSCHHHHHHHTSSCHHHHH--HHCSEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCSSCCCBCHH
T ss_pred             cccccCCeEEEEecCcCHHHHHHcCCccHHHHH--hhcCcEEeCCChhhhhHHHHHHHHHHHHHHHHHhCCCcccCcCHH
Confidence               12457889999975 2      35677777  886 3455555443  34444544332    22222     1233


Q ss_pred             cHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 007255          484 DLRSIAEETELFTGAELEGLCREAGIVA  511 (611)
Q Consensus       484 ~~~~la~~~~g~s~~~i~~~~~~a~~~a  511 (611)
                      .+..|.......+.++++++++.+...+
T Consensus       213 a~~~L~~~~~~gn~reL~~~l~~~~~~~  240 (265)
T 2bjv_A          213 ARETLLNYRWPGNIRELKNVVERSVYRH  240 (265)
T ss_dssp             HHHHHHHSCCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHhC
Confidence            3455655543335678888888766543

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.46  E-value=1.5e-12  Score=136.09  Aligned_cols=219  Identities=20%  Similarity=0.231  Sum_probs=139.5

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh------CCcEEEEccccccc
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC------GAHLTVISPHSVHK   91 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l------~~~~~~v~~~~~~~   91 (611)
                      .++++|.++.++.|.+++.....         -..+.+++|+||+|||||++++.+++.+      +..++.+++.....
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~---------~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~   89 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYR---------EEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDT   89 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGG---------TCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCS
T ss_pred             CCCCCChHHHHHHHHHHHHHHHc---------CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCC
Confidence            37899999999999887643211         1345799999999999999999999988      78888888653221


Q ss_pred             c----------------cccchHHH-HHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCC
Q 007255           92 A----------------HVGESEKA-LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK  154 (611)
Q Consensus        92 ~----------------~~~~~~~~-l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~  154 (611)
                      .                ..+..... ...++.....   .+.|.||+|||++.+....+      ...+..++..++...
T Consensus        90 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~---~~~~~vlilDE~~~l~~~~~------~~~l~~l~~~~~~~~  160 (386)
T 2qby_A           90 PYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRD---YGSQVVIVLDEIDAFVKKYN------DDILYKLSRINSEVN  160 (386)
T ss_dssp             HHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHT---CCSCEEEEEETHHHHHHSSC------STHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhc---cCCeEEEEEcChhhhhccCc------CHHHHHHhhchhhcC
Confidence            0                01111222 3333332221   23489999999998864321      134666777776531


Q ss_pred             CCCCCCCcEEEEEeecCc---ccccHHhhccCCcc-eEEEccCCCHHHHHHHHHHhhcCCC---CCCcccHHHHHHhcc-
Q 007255          155 PSKTSVPHVVVVASTNRV---DAIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKVP---LDANVDLEAIATSCN-  226 (611)
Q Consensus       155 ~~~~~~~~v~ii~ttn~~---~~l~~~l~~~~Rf~-~~i~~~~p~~~~r~~Il~~~~~~~~---~~~~~~~~~la~~~~-  226 (611)
                           ..++.+|++++.+   ..+++.+.+  ||. ..+.+++++.++..++++..+....   .-.+..+..++..+. 
T Consensus       161 -----~~~~~~I~~~~~~~~~~~~~~~~~~--r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~  233 (386)
T 2qby_A          161 -----KSKISFIGITNDVKFVDLLDPRVKS--SLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAR  233 (386)
T ss_dssp             -----C--EEEEEEESCGGGGGGCTTHHHH--TTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHH
T ss_pred             -----CCeEEEEEEECCCChHhhhCHHHhc--cCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHH
Confidence                 2257888888876   467888888  775 4899999999999999998764211   112223566666665 


Q ss_pred             --CCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHh
Q 007255          227 --GYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARS  270 (611)
Q Consensus       227 --g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~  270 (611)
                        |. .+.+.++++.+...+...        +...++.+++..+..
T Consensus       234 ~~G~-~r~~~~ll~~a~~~a~~~--------~~~~i~~~~v~~a~~  270 (386)
T 2qby_A          234 EHGD-ARRALDLLRVSGEIAERM--------KDTKVKEEYVYMAKE  270 (386)
T ss_dssp             TTCC-HHHHHHHHHHHHHHHHHT--------TCSSCCHHHHHHHHH
T ss_pred             hcCC-HHHHHHHHHHHHHHHHhc--------CCCccCHHHHHHHHH
Confidence              44 344455666665544321        112356666655543

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.46  E-value=4.7e-14  Score=154.91  Aligned_cols=220  Identities=19%  Similarity=0.187  Sum_probs=135.1

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee----cchhhccccc
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL----SGAELYSMYV  365 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~----~~~~~~~~~~  365 (611)
                      ..|.|++.+|+.+...+....  .........+...++||+||||||||++|+++|..++..++..    ++.++.....
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~--~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~~~~  372 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGV--PKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVV  372 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCC--CEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEEECS
T ss_pred             chhcChHHHHHHHHHHHhCCC--cccccCCCcCCCcceEEECCCchHHHHHHHHHHHhCCCceecCCCccccccccceee
Confidence            468899999887754443210  0000001123334899999999999999999999987666543    2333332211


Q ss_pred             cchH-H---HHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC-----------CCCCe
Q 007255          366 GESE-A---LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-----------QAKGI  430 (611)
Q Consensus       366 g~~~-~---~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~~  430 (611)
                      .... .   .....+..   ..++|+||||+|.+.              ....+.|+..|+...           .+.++
T Consensus       373 ~~~~~g~~~~~~G~l~~---A~~gil~IDEid~l~--------------~~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~  435 (595)
T 3f9v_A          373 REKGTGEYYLEAGALVL---ADGGIAVIDEIDKMR--------------DEDRVAIHEAMEQQTVSIAKAGIVAKLNARA  435 (595)
T ss_dssp             SGGGTSSCSEEECHHHH---HSSSEECCTTTTCCC--------------SHHHHHHHHHHHSSSEEEESSSSEEEECCCC
T ss_pred             eccccccccccCCeeEe---cCCCcEEeehhhhCC--------------HhHhhhhHHHHhCCEEEEecCCcEEEecCce
Confidence            1100 0   00001111   245699999999872              345677888887421           13468


Q ss_pred             EEEEecCCCc-------------ccchhccCCCCcc-ceeecCCCCHHHHHHHHHHHhcCCC------------------
Q 007255          431 LVLAATNRPH-------------AIDAALMRPGRFD-LVLYVPPPDLEARHEILRVHTRNMK------------------  478 (611)
Q Consensus       431 ~vI~~tn~~~-------------~ld~al~r~gRf~-~~i~~~~p~~~~r~~il~~~~~~~~------------------  478 (611)
                      .||+|||.++             .+++++++  ||| ..+..+.|+.+ ...|.+..+....                  
T Consensus       436 ~vIaatNp~~G~~~~~~~~~~ni~l~~aLl~--RFDl~~~~~~~~~~e-~~~i~~~il~~~~~~~~~~~l~~~~l~~~i~  512 (595)
T 3f9v_A          436 AVIAAGNPKFGRYISERPVSDNINLPPTILS--RFDLIFILKDQPGEQ-DRELANYILDVHSGKSTKNIIDIDTLRKYIA  512 (595)
T ss_dssp             EEEEEECCTTCCSCTTSCSCTTTCSCSSSGG--GCSCCEEECCTTHHH-HHHHHHHHHTTTCCCSSSSTTCCTTTHHHHH
T ss_pred             EEEEEcCCcCCccCcccCchhccCCCHHHHh--hCeEEEEeCCCCCHH-HHHHHHHHHHHhhccccccCCCHHHHHHHHH
Confidence            8999999886             89999999  998 45566778877 7788776654322                  


Q ss_pred             --------CCCcccHHHHHHh--------------CCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhc
Q 007255          479 --------VGDDVDLRSIAEE--------------TELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       479 --------~~~~~~~~~la~~--------------~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~  533 (611)
                              ..++...+.+...              ..+.|.+.+..+++.|...|..+.  ...++.+|+..|+.-+
T Consensus       513 ~ar~~~~p~ls~ea~~~l~~~y~~lR~~~~~~~~~~~~~s~R~l~~lirla~a~A~l~~--~~~V~~~dv~~Ai~l~  587 (595)
T 3f9v_A          513 YARKYVTPKITSEAKNLITDFFVEMRKKSSETPDSPILITPRQLEALIRISEAYAKMAL--KAEVTREDAERAINIM  587 (595)
T ss_dssp             HHHHHHCCCCCCCTHHHHHHHHTTSSCSCCBCSSSCBCSSTTTTTHHHHHHHHHHHTTS--SCCSSHHHHHHHHHHH
T ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHHHHhhccCCCccccccHHHHHHHHHHHHHHHHHhC--cCCCCHHHHHHHHHHH
Confidence                    1112222333333              346778888888887777665443  4457777777777543

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.45  E-value=1.6e-12  Score=134.53  Aligned_cols=188  Identities=19%  Similarity=0.247  Sum_probs=123.1

Q ss_pred             ccccccCCcHHHHHHHHHHH-HhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC---------------
Q 007255           16 KAEEAIGGNRAAVEALRELI-TFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA---------------   79 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l-~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~---------------   79 (611)
                      ..+++++|++.+++.|..++ ..           + ..+ +++|+||+|||||++++++++.+..               
T Consensus        11 ~~~~~~vg~~~~~~~l~~~~~~~-----------~-~~~-~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~   77 (354)
T 1sxj_E           11 KSLNALSHNEELTNFLKSLSDQP-----------R-DLP-HLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVT   77 (354)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCT-----------T-CCC-CEEEECSTTSSHHHHHHTHHHHHSCTTCCC----------
T ss_pred             CCHHHhcCCHHHHHHHHHHHhhC-----------C-CCC-eEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecc
Confidence            66799999999999887765 11           1 223 3999999999999999999996521               


Q ss_pred             --------------cEEEEcccccccccccchHHHHHHHHHHHHhhhh----------cCCCeEEEEccccccCCCCCCC
Q 007255           80 --------------HLTVISPHSVHKAHVGESEKALREAFSQASSHAL----------SGKPSVVFIDEIDALCPRRDHR  135 (611)
Q Consensus        80 --------------~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~----------~~~~~il~IDeid~l~~~~~~~  135 (611)
                                    .++.++++...    ......++..++.......          ..++.|++|||++.+.+     
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~-----  148 (354)
T 1sxj_E           78 ASNRKLELNVVSSPYHLEITPSDMG----NNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTK-----  148 (354)
T ss_dssp             --------CCEECSSEEEECCC--------CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCH-----
T ss_pred             cccccceeeeecccceEEecHhhcC----CcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCH-----
Confidence                          11222221110    0011123344433322110          23578999999998632     


Q ss_pred             chhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-C
Q 007255          136 REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-A  214 (611)
Q Consensus       136 ~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~  214 (611)
                           ..++.++..++...      .++.+|.+|+.++.+.+.+++  |+ ..+.|++|+.+++.++++..+...+.. .
T Consensus       149 -----~~~~~L~~~le~~~------~~~~~Il~t~~~~~l~~~l~s--R~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  214 (354)
T 1sxj_E          149 -----DAQAALRRTMEKYS------KNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPAPSDSEISTILSDVVTNERIQLE  214 (354)
T ss_dssp             -----HHHHHHHHHHHHST------TTEEEEEEESCSCSSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTCEEC
T ss_pred             -----HHHHHHHHHHHhhc------CCCEEEEEeCCHHHHHHHHHh--hc-eEEecCCcCHHHHHHHHHHHHHHcCCCCC
Confidence                 45677888888642      246788888998999999998  88 689999999999999999887654433 2


Q ss_pred             -cccHHHHHHhccCCccccHHHHHHHH
Q 007255          215 -NVDLEAIATSCNGYVGADLEALCREA  240 (611)
Q Consensus       215 -~~~~~~la~~~~g~~~~dl~~l~~~a  240 (611)
                       +..+..++..+.|. .+++.++++.+
T Consensus       215 ~~~~l~~i~~~~~G~-~r~a~~~l~~~  240 (354)
T 1sxj_E          215 TKDILKRIAQASNGN-LRVSLLMLESM  240 (354)
T ss_dssp             CSHHHHHHHHHHTTC-HHHHHHHHTHH
T ss_pred             cHHHHHHHHHHcCCC-HHHHHHHHHHH
Confidence             33577788777654 33333444433

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.44  E-value=8.9e-13  Score=158.35  Aligned_cols=119  Identities=20%  Similarity=0.228  Sum_probs=84.5

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhc----cc------------cccchHHHHHHHHHHHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELY----SM------------YVGESEALLRNTFQRAR  380 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~----~~------------~~g~~~~~~~~~~~~a~  380 (611)
                      |++++++++|+||||||||+||.+++.+.   |.....++..+..    .+            .....+..++.++..++
T Consensus      1423 Gi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~a~~~G~dl~~l~v~~~~~~E~~l~~~~~lvr 1502 (2050)
T 3cmu_A         1423 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR 1502 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHHHHHcCCCchhceeecCChHHHHHHHHHHHHh
Confidence            46788899999999999999999998876   4445555544322    11            12245677778888888


Q ss_pred             hcCCcEEEEcccccccccC---CCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCC
Q 007255          381 LAAPSIIFFDEADVVGAKR---GGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP  439 (611)
Q Consensus       381 ~~~p~il~iDeid~l~~~~---~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~  439 (611)
                      ...|++|+|||++.+.+..   +..++.......++++++|..|.+.....++++| +||.+
T Consensus      1503 ~~~~~lVVIDsi~al~p~~~~~g~~~~~~~~~~~R~lsqlL~~L~~~~~~~~v~VI-~tNq~ 1563 (2050)
T 3cmu_A         1503 SGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLI-FINQI 1563 (2050)
T ss_dssp             HTCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEE-EEECE
T ss_pred             cCCCCEEEEcChhHhcccccccccccccccchHHHHHHHHHHHHHHHHHhCCcEEE-EEccc
Confidence            8999999999999888742   2222222222467888888888887777788887 45543

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.44  E-value=4.3e-13  Score=135.32  Aligned_cols=196  Identities=17%  Similarity=0.208  Sum_probs=122.3

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccccc--
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH--   93 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~--   93 (611)
                      ++++|.....+.+.+.+...           ...+.++||+||||||||++|+++++..   +.+++.++|+.+....  
T Consensus         2 ~~iig~s~~~~~~~~~~~~~-----------a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~   70 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMV-----------APSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLE   70 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHH-----------CSTTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHH
Confidence            46899999999988877542           1245799999999999999999999976   5688999988654311  


Q ss_pred             ---ccc----hHH---HHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CC
Q 007255           94 ---VGE----SEK---ALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KT  158 (611)
Q Consensus        94 ---~~~----~~~---~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~  158 (611)
                         +|.    ...   .....|..+       .+++|||||+|.+..          ..+..|+..++.....     ..
T Consensus        71 ~~lfg~~~g~~tg~~~~~~g~~~~a-------~~g~L~LDEi~~l~~----------~~q~~Ll~~l~~~~~~~~g~~~~  133 (304)
T 1ojl_A           71 SELFGHEKGAFTGADKRREGRFVEA-------DGGTLFLDEIGDISP----------LMQVRLLRAIQEREVQRVGSNQT  133 (304)
T ss_dssp             HHHTCCCSSCCC---CCCCCHHHHH-------TTSEEEEESCTTCCH----------HHHHHHHHHHHSSBCCBTTBCCC
T ss_pred             HHhcCccccccCchhhhhcCHHHhc-------CCCEEEEeccccCCH----------HHHHHHHHHHhcCEeeecCCccc
Confidence               000    000   011223322       257999999998854          5677888888864311     11


Q ss_pred             CCCcEEEEEeecCc-------ccccHHhhccCCcc-eEEEccCCC--HHHHHHHHHHhhcC----CCC---C-CcccHHH
Q 007255          159 SVPHVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPT--AEERFEILKLYTKK----VPL---D-ANVDLEA  220 (611)
Q Consensus       159 ~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf~-~~i~~~~p~--~~~r~~Il~~~~~~----~~~---~-~~~~~~~  220 (611)
                      ...++.+|++||..       ..+++++..  ||. ..+.+|++.  .++...++++++..    ...   . .+..+..
T Consensus       134 ~~~~~riI~atn~~l~~~v~~g~fr~~L~~--Rl~~~~i~lPpL~eR~edi~~l~~~~l~~~~~~~~~~~~~~s~~a~~~  211 (304)
T 1ojl_A          134 ISVDVRLIAATHRDLAEEVSAGRFRQDLYY--RLNVVAIEMPSLRQRREDIPLLADHFLRRFAERNRKVVKGFTPQAMDL  211 (304)
T ss_dssp             CBCCCEEEEEESSCHHHHHHHTSSCHHHHH--HHSSEEEECCCSGGGGGGHHHHHHHHHHHHHHHTTCCCCCBCHHHHHH
T ss_pred             ccCCeEEEEecCccHHHHHHhCCcHHHHHh--hcCeeEEeccCHHHhHhhHHHHHHHHHHHHHHHhccCccCCCHHHHHH
Confidence            12357899999974       135677776  774 346666665  45666666665432    111   1 1112444


Q ss_pred             HHHhccCCccccHHHHHHHHHHHH
Q 007255          221 IATSCNGYVGADLEALCREATMSA  244 (611)
Q Consensus       221 la~~~~g~~~~dl~~l~~~a~~~a  244 (611)
                      +....-..+.+++.+++..++..+
T Consensus       212 L~~~~wpGnvReL~~~l~~~~~~~  235 (304)
T 1ojl_A          212 LIHYDWPGNIRELENAIERAVVLL  235 (304)
T ss_dssp             HHHCCCSSHHHHHHHHHHHHHHHC
T ss_pred             HHcCCCCCCHHHHHHHHHHHHHhC
Confidence            444331234577888888776543

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.43  E-value=5.2e-13  Score=142.66  Aligned_cols=159  Identities=17%  Similarity=0.159  Sum_probs=99.8

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC--cEEEEcccc-----ccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA--HLTVISPHS-----VHK   91 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~--~~~~v~~~~-----~~~   91 (611)
                      ..++|++++++.+...+..               ..++||+||||||||++|+++|+.++.  ++..+++.-     +..
T Consensus        22 ~~ivGq~~~i~~l~~al~~---------------~~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~~t~~dL~G   86 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALS---------------GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFG   86 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHH---------------TCEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTTCCHHHHHC
T ss_pred             hhhHHHHHHHHHHHHHHhc---------------CCeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhcCCHHHhcC
Confidence            4588999999888766533               269999999999999999999998853  455554431     111


Q ss_pred             ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCcEEEE
Q 007255           92 AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVVVV  166 (611)
Q Consensus        92 ~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~~~~~v~ii  166 (611)
                      ...+.... -...|..+.... ...++|||||||+.+.+          ..+..|+..|+.....     ...+.. ++|
T Consensus        87 ~~~~~~~~-~~g~~~~~~~g~-l~~~~IL~IDEI~r~~~----------~~q~~LL~~lee~~v~i~G~~~~~~~~-~iI  153 (500)
T 3nbx_X           87 PLSIQALK-DEGRYERLTSGY-LPEAEIVFLDEIWKAGP----------AILNTLLTAINERQFRNGAHVEKIPMR-LLV  153 (500)
T ss_dssp             CBC-----------CBCCTTS-GGGCSEEEEESGGGCCH----------HHHHHHHHHHHSSEEECSSSEEECCCC-EEE
T ss_pred             cccHHHHh-hchhHHhhhccC-CCcceeeeHHhHhhhcH----------HHHHHHHHHHHHHhccCCCCcCCcchh-hhh
Confidence            11111000 011121111110 01367999999987643          6788899999753211     111222 457


Q ss_pred             EeecCcc---cccHHhhccCCcceEEEccCCCH-HHHHHHHHHhh
Q 007255          167 ASTNRVD---AIDPALRRSGRFDAEVEVTVPTA-EERFEILKLYT  207 (611)
Q Consensus       167 ~ttn~~~---~l~~~l~~~~Rf~~~i~~~~p~~-~~r~~Il~~~~  207 (611)
                      ++||+..   ...+++.+  ||...+.+++|+. +++..|++...
T Consensus       154 ~ATN~lpe~~~~~~aLld--RF~~~i~v~~p~~~ee~~~IL~~~~  196 (500)
T 3nbx_X          154 AASNELPEADSSLEALYD--RMLIRLWLDKVQDKANFRSMLTSQQ  196 (500)
T ss_dssp             EEESSCCCTTCTTHHHHT--TCCEEEECCSCCCHHHHHHHHTCCC
T ss_pred             hccccCCCccccHHHHHH--HHHHHHHHHHhhhhhhHHHHHhccc
Confidence            7777632   24468888  9988899999987 77888887654

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=99.42  E-value=2.1e-12  Score=129.91  Aligned_cols=146  Identities=14%  Similarity=0.187  Sum_probs=110.7

Q ss_pred             CcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh------CCcEEEEcccccccccccc
Q 007255           23 GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC------GAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        23 G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l------~~~~~~v~~~~~~~~~~~~   96 (611)
                      |++++++.|...+..           | + ..++||+||||+|||++++++|+.+      ...+..++++.-     ..
T Consensus         1 g~~~~~~~L~~~i~~-----------~-~-~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~-----~~   62 (305)
T 2gno_A            1 GAKDQLETLKRIIEK-----------S-E-GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGE-----NI   62 (305)
T ss_dssp             ---CHHHHHHHHHHT-----------C-S-SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSS-----CB
T ss_pred             ChHHHHHHHHHHHHC-----------C-C-CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcC-----CC
Confidence            678888888888754           1 1 4689999999999999999999874      346777775421     12


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCccccc
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAID  176 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~  176 (611)
                      ....++.+.+.+...+..++..|++|||+|.|..          ..++.|+..+++      +++++++|.+|+.++.+.
T Consensus        63 ~id~ir~li~~~~~~p~~~~~kvviIdead~lt~----------~a~naLLk~LEe------p~~~t~fIl~t~~~~kl~  126 (305)
T 2gno_A           63 GIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQ----------QAANAFLKALEE------PPEYAVIVLNTRRWHYLL  126 (305)
T ss_dssp             CHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBCH----------HHHHHTHHHHHS------CCTTEEEEEEESCGGGSC
T ss_pred             CHHHHHHHHHHHhhccccCCceEEEeccHHHhCH----------HHHHHHHHHHhC------CCCCeEEEEEECChHhCh
Confidence            2345677777776555455678999999999853          457889999986      334678888888899999


Q ss_pred             HHhhccCCcceEEEccCCCHHHHHHHHHHhh
Q 007255          177 PALRRSGRFDAEVEVTVPTAEERFEILKLYT  207 (611)
Q Consensus       177 ~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~  207 (611)
                      |.+++  |   .+.|++|+.++..++++..+
T Consensus       127 ~tI~S--R---~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          127 PTIKS--R---VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             HHHHT--T---SEEEECCCCHHHHHHHHHHH
T ss_pred             HHHHc--e---eEeCCCCCHHHHHHHHHHHh
Confidence            99999  7   68999999999999998876

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=99.42  E-value=7.7e-13  Score=133.02  Aligned_cols=142  Identities=11%  Similarity=0.137  Sum_probs=108.7

Q ss_pred             chhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh------CCcEEeecchhhccccccc
Q 007255          294 GLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA------EASFFSLSGAELYSMYVGE  367 (611)
Q Consensus       294 g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~------~~~~~~~~~~~~~~~~~g~  367 (611)
                      |++++.+.|...+..           + . .+++|||||||+|||++|+++|..+      ...++.+++++   .  ..
T Consensus         1 g~~~~~~~L~~~i~~-----------~-~-~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~---~--~~   62 (305)
T 2gno_A            1 GAKDQLETLKRIIEK-----------S-E-GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG---E--NI   62 (305)
T ss_dssp             ---CHHHHHHHHHHT-----------C-S-SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS---S--CB
T ss_pred             ChHHHHHHHHHHHHC-----------C-C-CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCc---C--CC
Confidence            577788888888764           2 2 4689999999999999999999864      33566666542   1  12


Q ss_pred             hHHHHHHHHHHHHhcC----CcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccc
Q 007255          368 SEALLRNTFQRARLAA----PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAID  443 (611)
Q Consensus       368 ~~~~~~~~~~~a~~~~----p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld  443 (611)
                      ....++.+.+.+...+    ..|++|||+|.+-              ....+.|++.|+  ++++++++|++|+.|+.+.
T Consensus        63 ~id~ir~li~~~~~~p~~~~~kvviIdead~lt--------------~~a~naLLk~LE--ep~~~t~fIl~t~~~~kl~  126 (305)
T 2gno_A           63 GIDDIRTIKDFLNYSPELYTRKYVIVHDCERMT--------------QQAANAFLKALE--EPPEYAVIVLNTRRWHYLL  126 (305)
T ss_dssp             CHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBC--------------HHHHHHTHHHHH--SCCTTEEEEEEESCGGGSC
T ss_pred             CHHHHHHHHHHHhhccccCCceEEEeccHHHhC--------------HHHHHHHHHHHh--CCCCCeEEEEEECChHhCh
Confidence            2345677777765332    3599999999882              456789999998  6778899999999999999


Q ss_pred             hhccCCCCccceeecCCCCHHHHHHHHHHHh
Q 007255          444 AALMRPGRFDLVLYVPPPDLEARHEILRVHT  474 (611)
Q Consensus       444 ~al~r~gRf~~~i~~~~p~~~~r~~il~~~~  474 (611)
                      +++.+  |   ++.|++|+.++..+.++..+
T Consensus       127 ~tI~S--R---~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          127 PTIKS--R---VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             HHHHT--T---SEEEECCCCHHHHHHHHHHH
T ss_pred             HHHHc--e---eEeCCCCCHHHHHHHHHHHh
Confidence            99998  8   89999999999999998665

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.41  E-value=2.9e-13  Score=136.58  Aligned_cols=190  Identities=18%  Similarity=0.196  Sum_probs=117.1

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc----
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----  363 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~----  363 (611)
                      +++|.....+.+.+.+...           .....++||+||||||||++|++++...   +.+|+.++++.+...    
T Consensus         3 ~iig~s~~~~~~~~~~~~~-----------a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~~   71 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMV-----------APSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLES   71 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHH-----------CSTTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHHH
T ss_pred             CcEECCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHHH
Confidence            5778877777777766542           1334679999999999999999999976   678999988765321    


Q ss_pred             ---------cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC---------
Q 007255          364 ---------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE---------  425 (611)
Q Consensus       364 ---------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------  425 (611)
                               +.|... .....|..+   .+++|||||++.+.              ......|+..|+...         
T Consensus        72 ~lfg~~~g~~tg~~~-~~~g~~~~a---~~g~L~LDEi~~l~--------------~~~q~~Ll~~l~~~~~~~~g~~~~  133 (304)
T 1ojl_A           72 ELFGHEKGAFTGADK-RREGRFVEA---DGGTLFLDEIGDIS--------------PLMQVRLLRAIQEREVQRVGSNQT  133 (304)
T ss_dssp             HHTCCCSSCCC---C-CCCCHHHHH---TTSEEEEESCTTCC--------------HHHHHHHHHHHHSSBCCBTTBCCC
T ss_pred             HhcCccccccCchhh-hhcCHHHhc---CCCEEEEeccccCC--------------HHHHHHHHHHHhcCEeeecCCccc
Confidence                     111110 111223333   35699999999872              345677787776432         


Q ss_pred             CCCCeEEEEecCCCc-------ccchhccCCCCcc-ceeecCCCC--HHHHHHHHHHHhcC----CC----CCCcccHHH
Q 007255          426 QAKGILVLAATNRPH-------AIDAALMRPGRFD-LVLYVPPPD--LEARHEILRVHTRN----MK----VGDDVDLRS  487 (611)
Q Consensus       426 ~~~~~~vI~~tn~~~-------~ld~al~r~gRf~-~~i~~~~p~--~~~r~~il~~~~~~----~~----~~~~~~~~~  487 (611)
                      ...++.+|+|||.+-       .+++++..  ||. ..|.+|+..  .++...+++.++..    ..    ..++..+..
T Consensus       134 ~~~~~riI~atn~~l~~~v~~g~fr~~L~~--Rl~~~~i~lPpL~eR~edi~~l~~~~l~~~~~~~~~~~~~~s~~a~~~  211 (304)
T 1ojl_A          134 ISVDVRLIAATHRDLAEEVSAGRFRQDLYY--RLNVVAIEMPSLRQRREDIPLLADHFLRRFAERNRKVVKGFTPQAMDL  211 (304)
T ss_dssp             CBCCCEEEEEESSCHHHHHHHTSSCHHHHH--HHSSEEEECCCSGGGGGGHHHHHHHHHHHHHHHTTCCCCCBCHHHHHH
T ss_pred             ccCCeEEEEecCccHHHHHHhCCcHHHHHh--hcCeeEEeccCHHHhHhhHHHHHHHHHHHHHHHhccCccCCCHHHHHH
Confidence            123588999999751       24555665  775 334555444  34444555544322    21    113334666


Q ss_pred             HHHhCCCCCHHHHHHHHHHHHHHH
Q 007255          488 IAEETELFTGAELEGLCREAGIVA  511 (611)
Q Consensus       488 la~~~~g~s~~~i~~~~~~a~~~a  511 (611)
                      |......-+.+++++++..+...+
T Consensus       212 L~~~~wpGnvReL~~~l~~~~~~~  235 (304)
T 1ojl_A          212 LIHYDWPGNIRELENAIERAVVLL  235 (304)
T ss_dssp             HHHCCCSSHHHHHHHHHHHHHHHC
T ss_pred             HHcCCCCCCHHHHHHHHHHHHHhC
Confidence            776653336678888888776654

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.40  E-value=2.4e-13  Score=121.17  Aligned_cols=132  Identities=16%  Similarity=0.181  Sum_probs=91.7

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHH
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEK   99 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~   99 (611)
                      +++|.+..++.+.+.+....           ..+.+++|+||||||||++|+++++..+ +++.++++.+....      
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~-----------~~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~~~~~~~------   66 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAA-----------KRTSPVFLTGEAGSPFETVARYFHKNGT-PWVSPARVEYLIDM------   66 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHH-----------TCSSCEEEEEETTCCHHHHHGGGCCTTS-CEECCSSTTHHHHC------
T ss_pred             CceeCCHHHHHHHHHHHHHh-----------CCCCcEEEECCCCccHHHHHHHHHHhCC-CeEEechhhCChHh------
Confidence            57899999999988875421           2457899999999999999999999888 89999988765432      


Q ss_pred             HHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCc-cc----
Q 007255          100 ALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV-DA----  174 (611)
Q Consensus       100 ~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~-~~----  174 (611)
                       ....+..+       ++++|||||+|.+.+          ..+..++..++...     ..++.+|++||.. +.    
T Consensus        67 -~~~~~~~a-------~~~~l~lDei~~l~~----------~~q~~Ll~~l~~~~-----~~~~~iI~~tn~~~~~~~~~  123 (143)
T 3co5_A           67 -PMELLQKA-------EGGVLYVGDIAQYSR----------NIQTGITFIIGKAE-----RCRVRVIASCSYAAGSDGIS  123 (143)
T ss_dssp             -HHHHHHHT-------TTSEEEEEECTTCCH----------HHHHHHHHHHHHHT-----TTTCEEEEEEEECTTTC--C
T ss_pred             -hhhHHHhC-------CCCeEEEeChHHCCH----------HHHHHHHHHHHhCC-----CCCEEEEEecCCCHHHHHhC
Confidence             33444443       257999999998854          45677788887642     1246788888753 33    


Q ss_pred             ccHHhhccCCcc-eEEEccCC
Q 007255          175 IDPALRRSGRFD-AEVEVTVP  194 (611)
Q Consensus       175 l~~~l~~~~Rf~-~~i~~~~p  194 (611)
                      +++.+..  |+. ..|.+|+.
T Consensus       124 ~~~~L~~--rl~~~~i~lPpL  142 (143)
T 3co5_A          124 CEEKLAG--LFSESVVRIPPL  142 (143)
T ss_dssp             HHHHHHH--HSSSEEEEECCC
T ss_pred             ccHHHHH--HhcCcEEeCCCC
Confidence            5556665  543 35666653

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.40  E-value=6.5e-13  Score=118.69  Aligned_cols=131  Identities=15%  Similarity=0.165  Sum_probs=89.6

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccc
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~   96 (611)
                      +++|.....+.+.+.+...           ...+.++||+||||||||++|+++++..   +.+++ +++..+...    
T Consensus         2 ~iiG~s~~~~~~~~~~~~~-----------a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~----   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQL-----------SETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNA----   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHH-----------TTCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTS----
T ss_pred             CceeCCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcc----
Confidence            5789999999998877542           1245789999999999999999999987   66888 888876543    


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc---
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---  173 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~---  173 (611)
                        ......+..+.       +++|||||+|.+.+          ..+..|+..+....      .++.+|++||.+-   
T Consensus        66 --~~~~~~~~~a~-------~g~l~ldei~~l~~----------~~q~~Ll~~l~~~~------~~~~~I~~t~~~~~~~  120 (145)
T 3n70_A           66 --PQLNDFIALAQ-------GGTLVLSHPEHLTR----------EQQYHLVQLQSQEH------RPFRLIGIGDTSLVEL  120 (145)
T ss_dssp             --SCHHHHHHHHT-------TSCEEEECGGGSCH----------HHHHHHHHHHHSSS------CSSCEEEEESSCHHHH
T ss_pred             --hhhhcHHHHcC-------CcEEEEcChHHCCH----------HHHHHHHHHHhhcC------CCEEEEEECCcCHHHH
Confidence              12334444442       57999999998854          55777888884422      2456888888631   


Q ss_pred             ----cccHHhhccCCcc-eEEEccC
Q 007255          174 ----AIDPALRRSGRFD-AEVEVTV  193 (611)
Q Consensus       174 ----~l~~~l~~~~Rf~-~~i~~~~  193 (611)
                          .+.+.+..  |+. ..|.+|+
T Consensus       121 ~~~~~~~~~L~~--rl~~~~i~lPp  143 (145)
T 3n70_A          121 AASNHIIAELYY--CFAMTQIACLP  143 (145)
T ss_dssp             HHHSCCCHHHHH--HHHHHEEECCC
T ss_pred             HHcCCCCHHHHH--HhcCCEEeCCC
Confidence                34455544  443 2455555

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.38  E-value=1.7e-13  Score=150.46  Aligned_cols=169  Identities=20%  Similarity=0.202  Sum_probs=104.7

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc----ccccccccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS----PHSVHKAHV   94 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~----~~~~~~~~~   94 (611)
                      ..|+|++++++.+...+...  ..........+...++||+||||||||++|+++|+.++...+...    +..+.....
T Consensus       295 ~~I~G~e~vk~al~~~l~~g--~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~~~~  372 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGG--VPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVV  372 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCC--CCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEEECS
T ss_pred             chhcChHHHHHHHHHHHhCC--CcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhCCCceecCCCccccccccceee
Confidence            46899999887764332110  000000011233459999999999999999999999876654432    122211111


Q ss_pred             cchHH----HHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-------CCCCCcE
Q 007255           95 GESEK----ALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-------KTSVPHV  163 (611)
Q Consensus        95 ~~~~~----~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-------~~~~~~v  163 (611)
                      .....    .....+..+       .++|+||||+|.+.+          ..+..|+..|+.....       ...+.++
T Consensus       373 ~~~~~g~~~~~~G~l~~A-------~~gil~IDEid~l~~----------~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~  435 (595)
T 3f9v_A          373 REKGTGEYYLEAGALVLA-------DGGIAVIDEIDKMRD----------EDRVAIHEAMEQQTVSIAKAGIVAKLNARA  435 (595)
T ss_dssp             SGGGTSSCSEEECHHHHH-------SSSEECCTTTTCCCS----------HHHHHHHHHHHSSSEEEESSSSEEEECCCC
T ss_pred             eccccccccccCCeeEec-------CCCcEEeehhhhCCH----------hHhhhhHHHHhCCEEEEecCCcEEEecCce
Confidence            00000    000111111       257999999999865          5678889999864321       1123467


Q ss_pred             EEEEeecCcc-------------cccHHhhccCCcc-eEEEccCCCHHHHHHHHHHhhcC
Q 007255          164 VVVASTNRVD-------------AIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKK  209 (611)
Q Consensus       164 ~ii~ttn~~~-------------~l~~~l~~~~Rf~-~~i~~~~p~~~~r~~Il~~~~~~  209 (611)
                      .+|+|||+..             .+++++++  ||+ ..+..+.|+.+ ...|.++.+..
T Consensus       436 ~vIaatNp~~G~~~~~~~~~~ni~l~~aLl~--RFDl~~~~~~~~~~e-~~~i~~~il~~  492 (595)
T 3f9v_A          436 AVIAAGNPKFGRYISERPVSDNINLPPTILS--RFDLIFILKDQPGEQ-DRELANYILDV  492 (595)
T ss_dssp             EEEEEECCTTCCSCTTSCSCTTTCSCSSSGG--GCSCCEEECCTTHHH-HHHHHHHHHTT
T ss_pred             EEEEEcCCcCCccCcccCchhccCCCHHHHh--hCeEEEEeCCCCCHH-HHHHHHHHHHH
Confidence            8999999976             88999999  996 45566777777 77888776654

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.38  E-value=5.4e-13  Score=119.22  Aligned_cols=112  Identities=10%  Similarity=0.129  Sum_probs=78.4

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccc
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGE  367 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~  367 (611)
                      +++|.....+.+.+.+...           .....++||+||||||||++|++++...   +.+|+ ++++.+...    
T Consensus         2 ~iiG~s~~~~~~~~~~~~~-----------a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~----   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQL-----------SETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNA----   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHH-----------TTCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTS----
T ss_pred             CceeCCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcc----
Confidence            4677777777777666531           1234579999999999999999999987   77888 998877554    


Q ss_pred             hHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCC
Q 007255          368 SEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP  439 (611)
Q Consensus       368 ~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~  439 (611)
                        ......+..+   .+++|||||+|.+.              ......|+..|.  ....++.+|+|||.+
T Consensus        66 --~~~~~~~~~a---~~g~l~ldei~~l~--------------~~~q~~Ll~~l~--~~~~~~~~I~~t~~~  116 (145)
T 3n70_A           66 --PQLNDFIALA---QGGTLVLSHPEHLT--------------REQQYHLVQLQS--QEHRPFRLIGIGDTS  116 (145)
T ss_dssp             --SCHHHHHHHH---TTSCEEEECGGGSC--------------HHHHHHHHHHHH--SSSCSSCEEEEESSC
T ss_pred             --hhhhcHHHHc---CCcEEEEcChHHCC--------------HHHHHHHHHHHh--hcCCCEEEEEECCcC
Confidence              1123344443   45699999999882              345567777775  344567788888875

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.34  E-value=8e-12  Score=138.15  Aligned_cols=232  Identities=19%  Similarity=0.235  Sum_probs=143.4

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE---Eeecch
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF---FSLSGA  358 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~---~~~~~~  358 (611)
                      ..+++..|++++|++.+++.+...+..               ..+++|+||||||||++|+++|..+....   +.+...
T Consensus        33 ~~~rp~~l~~i~G~~~~l~~l~~~i~~---------------g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~~~~~~~~   97 (604)
T 3k1j_A           33 IEVPEKLIDQVIGQEHAVEVIKTAANQ---------------KRHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPN   97 (604)
T ss_dssp             SCCCSSHHHHCCSCHHHHHHHHHHHHT---------------TCCEEEECCTTSSHHHHHHHHHHTSCCSSCEEEEEECC
T ss_pred             ccccccccceEECchhhHhhccccccC---------------CCEEEEEeCCCCCHHHHHHHHhccCCcccCCeEEEeCC
Confidence            456677899999999999888877763               24799999999999999999999884321   111110


Q ss_pred             hhc--cc---c--ccchHH-------------------------------------------------HHHHHHH-----
Q 007255          359 ELY--SM---Y--VGESEA-------------------------------------------------LLRNTFQ-----  377 (611)
Q Consensus       359 ~~~--~~---~--~g~~~~-------------------------------------------------~~~~~~~-----  377 (611)
                      ...  ..   +  .+....                                                 ....+|.     
T Consensus        98 ~~~~~~p~i~~~p~g~~~~~~e~~~~~~~~~~~~r~~~~~~~~~~~~~nl~v~~~~~~~~~~v~~~~~~~~~L~G~~~~~  177 (604)
T 3k1j_A           98 PEDENMPRIKTVPACQGRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKAPFIDATGAHAGALLGDVRHD  177 (604)
T ss_dssp             TTCTTSCEEEEEETTHHHHHHHHHHHHHHHHTCC-----------CCCEEEECCTTCSSCCEEECTTCCHHHHHCEECCC
T ss_pred             cccccCCcEEEEecchHHHHHHHHHHhhccchhhhhhcccccccccccceeeccccCCCCCEEEcCCCCHHhcCceEEec
Confidence            000  00   0  000000                                                 0111111     


Q ss_pred             ------------------HHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC---------------
Q 007255          378 ------------------RARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL---------------  424 (611)
Q Consensus       378 ------------------~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~---------------  424 (611)
                                        ......+.+|||||++.+-              ....+.|+..|+.-               
T Consensus       178 ~~~~g~~~~g~~~~i~~g~~~~a~~gvL~LDEi~~l~--------------~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~  243 (604)
T 3k1j_A          178 PFQSGGLGTPAHERVEPGMIHRAHKGVLFIDEIATLS--------------LKMQQSLLTAMQEKKFPITGQSEMSSGAM  243 (604)
T ss_dssp             CC----CCCCGGGGEECCHHHHTTTSEEEETTGGGSC--------------HHHHHHHHHHHHHSEECCBCSCTTSGGGG
T ss_pred             hhhcCCccccccccccCceeeecCCCEEEEechhhCC--------------HHHHHHHHHHHHcCcEEeccccccccccc
Confidence                              0112345699999999872              34667777777521               


Q ss_pred             ----CCCCCeEEEEecCCC--cccchhccCCCCcc---ceeecCCC---CHHHHHHHHHHHhcC------CCCCCcccHH
Q 007255          425 ----EQAKGILVLAATNRP--HAIDAALMRPGRFD---LVLYVPPP---DLEARHEILRVHTRN------MKVGDDVDLR  486 (611)
Q Consensus       425 ----~~~~~~~vI~~tn~~--~~ld~al~r~gRf~---~~i~~~~p---~~~~r~~il~~~~~~------~~~~~~~~~~  486 (611)
                          ..+.++.||++||+.  +.++++|++  ||.   ..+.|+..   +.+....+++...+.      ....++..+.
T Consensus       244 l~~~~~p~~~~vI~atn~~~~~~l~~~l~~--R~~v~~i~i~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ls~eAl~  321 (604)
T 3k1j_A          244 VRTEPVPCDFVLVAAGNLDTVDKMHPALRS--RIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVE  321 (604)
T ss_dssp             CBCSCEECCCEEEEEECHHHHHHSCHHHHH--HHHHHSEEEECCSEEECCHHHHHHHHHHHHHHHHHHCSSCCBBHHHHH
T ss_pred             CCCCccceeEEEEEecCHHHHhhcCHHHHH--HhhccceEeeccccccCCHHHHHHHHHHHHHHHhhccCcccCCHHHHH
Confidence                112367899999986  679999999  986   45666532   345566666543322      1222334455


Q ss_pred             HHHHhC---CCC------CHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCCCCCHHHHHHHHH
Q 007255          487 SIAEET---ELF------TGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYSS  547 (611)
Q Consensus       487 ~la~~~---~g~------s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~~~~~~~~~~~~~  547 (611)
                      .|.+.+   .|-      +.+++.++++.|...|..+.  ...++.+|+..++... ..+..+..+.|..
T Consensus       322 ~Li~~~~r~~g~r~~l~~~~R~l~~llr~A~~~A~~~~--~~~I~~edv~~A~~~~-~~i~~~~~e~~l~  388 (604)
T 3k1j_A          322 EIVREAQKRAGRKGHLTLRLRDLGGIVRAAGDIAVKKG--KKYVEREDVIEAVKMA-KPLEKQLADWYIE  388 (604)
T ss_dssp             HHHHHHHHTTCSTTEEECCHHHHHHHHHHHHHHHHHTT--CSSBCHHHHHHHHHHT-CCHHHHHHHHHHH
T ss_pred             HHHHHHhhhhccccccccCHHHHHHHHHHHHHHHHhcC--cccccHHHHHHHHHhh-hhhHHHHHHHHhc
Confidence            555533   452      68999999999887776543  4569999999999542 2333343444443

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.31  E-value=1.5e-12  Score=156.45  Aligned_cols=161  Identities=14%  Similarity=0.157  Sum_probs=91.8

Q ss_pred             cccccccCCCcccccccchhHHHHHHHHHh-----------------hccCCChhHHhhc---CCCCCCCcceeCCCCCC
Q 007255          277 TRGVTVEIPKVTWEDIGGLRDLKKKLQQAV-----------------EWPIKHSTAFSRL---GISPVRGALLHGPPGCS  336 (611)
Q Consensus       277 ~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~-----------------~~~~~~~~~~~~~---~~~~~~~~Ll~Gp~G~G  336 (611)
                      .+......|.++|++--....+.+.+....                 ..+...++.-.-+   |+.+...++|+|+||+|
T Consensus       665 L~e~~~~~~~v~~~~~~~i~~a~~~i~~~f~~~~~~~l~~~~~~~~~~i~TG~~eLD~llggGGl~~G~lilIaG~PG~G  744 (2050)
T 3cmu_A          665 MGHTTGAMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSG  744 (2050)
T ss_dssp             ---------CCSTTHHHHHHHHHHHHHHHHCTTSEEEGGGCTTTSCCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSS
T ss_pred             HHhhhccccCCcHHHHHHHHHHHHHHHHhhccccccchhhhhhcccceeecCChHHHHHhccCCcCCCcEEEEEcCCCCC
Confidence            334444567777764333444444443221                 1122334444444   46777889999999999


Q ss_pred             hHHHHHHHHHHh---CCcEEeecchhhcccc----cc--------chHHHHHHHHHHHHh----cCCcEEEEcccccccc
Q 007255          337 KTTLAKAAAHAA---EASFFSLSGAELYSMY----VG--------ESEALLRNTFQRARL----AAPSIIFFDEADVVGA  397 (611)
Q Consensus       337 KT~la~ala~~~---~~~~~~~~~~~~~~~~----~g--------~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~  397 (611)
                      ||++|..+|..+   +.++++++......+.    .|        ..+..+..++..++.    ..|++|+||.+..++.
T Consensus       745 KTtLalqlA~~~a~~g~~VlyiS~Ees~~ql~A~rlG~~~~~l~i~~~~~i~~i~~~~r~l~~~~~~~LVIIDsLq~i~~  824 (2050)
T 3cmu_A          745 KTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTP  824 (2050)
T ss_dssp             HHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGGCCC
T ss_pred             HHHHHHHHHHHHHhcCCcEEEEECCCcHHHHHHHHcCCCccceEEecCCCHHHHHHHHHHHhhccCCCEEEEcchhhhcc
Confidence            999999999876   4568888776554432    11        111223344444433    6789999999999986


Q ss_pred             -cC--CCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecC
Q 007255          398 -KR--GGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATN  437 (611)
Q Consensus       398 -~~--~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn  437 (611)
                       ..  +..++.......|.+++++..|..+...-++.||+++.
T Consensus       825 ~~~~~~~~Gs~~q~La~Reis~ilr~Lk~lAke~~v~VI~l~Q  867 (2050)
T 3cmu_A          825 KAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQ  867 (2050)
T ss_dssp             HHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEEEEEC
T ss_pred             cccccCCCCchhhHHHHHHHHHHHHHHHHHHHHhCCEEEEecc
Confidence             22  11111111233455778777787777777788876654

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.30  E-value=9.2e-13  Score=117.40  Aligned_cols=112  Identities=13%  Similarity=0.152  Sum_probs=78.8

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHH
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEA  370 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~  370 (611)
                      +++|.+...+.+.+.+....           ....++||+||||||||++|++++...+ +++.++++++...+      
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~-----------~~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~~~~~~~------   66 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAA-----------KRTSPVFLTGEAGSPFETVARYFHKNGT-PWVSPARVEYLIDM------   66 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHH-----------TCSSCEEEEEETTCCHHHHHGGGCCTTS-CEECCSSTTHHHHC------
T ss_pred             CceeCCHHHHHHHHHHHHHh-----------CCCCcEEEECCCCccHHHHHHHHHHhCC-CeEEechhhCChHh------
Confidence            46788888777777765311           2345799999999999999999999888 99999988775533      


Q ss_pred             HHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCC
Q 007255          371 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP  439 (611)
Q Consensus       371 ~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~  439 (611)
                       ....+..+   .+++|||||+|.+.              ......|+..|+.. ...++.+|+|||.+
T Consensus        67 -~~~~~~~a---~~~~l~lDei~~l~--------------~~~q~~Ll~~l~~~-~~~~~~iI~~tn~~  116 (143)
T 3co5_A           67 -PMELLQKA---EGGVLYVGDIAQYS--------------RNIQTGITFIIGKA-ERCRVRVIASCSYA  116 (143)
T ss_dssp             -HHHHHHHT---TTSEEEEEECTTCC--------------HHHHHHHHHHHHHH-TTTTCEEEEEEEEC
T ss_pred             -hhhHHHhC---CCCeEEEeChHHCC--------------HHHHHHHHHHHHhC-CCCCEEEEEecCCC
Confidence             34444443   35699999999872              23456666666532 24567888888864

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.26  E-value=9.1e-11  Score=123.70  Aligned_cols=224  Identities=13%  Similarity=0.069  Sum_probs=141.7

Q ss_pred             ccccccchhHHHHHHHHHh-hccCCChhHHhhcCC-CCCCCcce--eCCCCCChHHHHHHHHHHh---------CCcEEe
Q 007255          288 TWEDIGGLRDLKKKLQQAV-EWPIKHSTAFSRLGI-SPVRGALL--HGPPGCSKTTLAKAAAHAA---------EASFFS  354 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~-~~~~~~~~~~~~~~~-~~~~~~Ll--~Gp~G~GKT~la~ala~~~---------~~~~~~  354 (611)
                      ..+.++|.+...+.+.+.+ .....        +. ..+..+++  +||||+|||++++++++.+         +..++.
T Consensus        20 ~p~~l~gR~~el~~l~~~l~~~~~~--------~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~   91 (412)
T 1w5s_A           20 IPPELRVRRGEAEALARIYLNRLLS--------GAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAY   91 (412)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHT--------SSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCCCCChHHHHHHHHHHHhHHHhc--------CCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEE
Confidence            3467899998888888776 42111        10 23457899  9999999999999999876         456677


Q ss_pred             ecchhhcc------c----------cccc-hHHHHHHHHHHHH-hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHH
Q 007255          355 LSGAELYS------M----------YVGE-SEALLRNTFQRAR-LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLST  416 (611)
Q Consensus       355 ~~~~~~~~------~----------~~g~-~~~~~~~~~~~a~-~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~  416 (611)
                      +++.....      .          ..+. .......+..... ...|.||+|||+|.+.....        .....+..
T Consensus        92 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~--------~~~~~l~~  163 (412)
T 1w5s_A           92 VNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPR--------IAAEDLYT  163 (412)
T ss_dssp             EEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTT--------SCHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccC--------cchHHHHH
Confidence            77532111      0          0011 1222333333332 24578999999998853210        01345555


Q ss_pred             HHHHhcCCC-CC--CCeEEEEecCCCc---ccc---hhccCCCCccceeecCCCCHHHHHHHHHHHhcCC---CCCCccc
Q 007255          417 LLTEMDGLE-QA--KGILVLAATNRPH---AID---AALMRPGRFDLVLYVPPPDLEARHEILRVHTRNM---KVGDDVD  484 (611)
Q Consensus       417 ll~~l~~~~-~~--~~~~vI~~tn~~~---~ld---~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~---~~~~~~~  484 (611)
                      ++..++... ..  .++.+|++|+.++   .++   +.+.+  |+...+.+++++.++..++++..+...   ...++..
T Consensus       164 l~~~~~~~~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~--~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~  241 (412)
T 1w5s_A          164 LLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRH  241 (412)
T ss_dssp             HHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHH
T ss_pred             HHHHHHhcccCCCCceEEEEEEeccccHHHHHhhhcchhhh--hcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHH
Confidence            555554332 13  6788888888766   345   66666  666569999999999999998654321   1223445


Q ss_pred             HHHHHHhCC------CCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhh
Q 007255          485 LRSIAEETE------LFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDS  532 (611)
Q Consensus       485 ~~~la~~~~------g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~  532 (611)
                      +..+++.+.      | .+..+..++..+...+..+.  ...++..++..++..
T Consensus       242 ~~~i~~~~~~~~~~~G-~p~~~~~l~~~a~~~a~~~~--~~~i~~~~v~~~~~~  292 (412)
T 1w5s_A          242 LELISDVYGEDKGGDG-SARRAIVALKMACEMAEAMG--RDSLSEDLVRKAVSE  292 (412)
T ss_dssp             HHHHHHHHCGGGTSCC-CHHHHHHHHHHHHHHHHHTT--CSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCC-cHHHHHHHHHHHHHHHHHcC--CCCCCHHHHHHHHHH
Confidence            778888888      8 57788888888776665432  234666666666544

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens}

Probab=99.21  E-value=2.9e-11  Score=96.56  Aligned_cols=77  Identities=36%  Similarity=0.591  Sum_probs=71.2

Q ss_pred             cCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCCC
Q 007255          458 VPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPA  536 (611)
Q Consensus       458 ~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~~  536 (611)
                      -.+||.++|.+||+.++++.++..++|++.||+.|+||||+||.++|++|+..|+++.  ...|+.+||..++.++.|.
T Consensus         8 ~~~Pd~~~R~~IL~~~l~~~~l~~dvdl~~LA~~T~G~SGADL~~l~~eAa~~alr~~--~~~I~~~df~~Al~~v~p~   84 (86)
T 2krk_A            8 HSHPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER--RVHVTQEDFEMAVAKVMQK   84 (86)
T ss_dssp             CCCCCHHHHHHHHHHHTTTSEECTTCCCHHHHHTCSSCCHHHHHHHHHHHHHHHHHTT--CSEECHHHHHHHHHHHHCC
T ss_pred             CCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHccC
Confidence            4589999999999999999999889999999999999999999999999999999886  5689999999999888764

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens}

Probab=99.21  E-value=5.1e-11  Score=93.78  Aligned_cols=74  Identities=41%  Similarity=0.697  Sum_probs=69.0

Q ss_pred             CCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhcC
Q 007255          459 PPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLK  534 (611)
Q Consensus       459 ~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~  534 (611)
                      |+||.++|.+||+.++++++...++++..||+.|+||||+||.++|++|+..++++.  ...|+..||..++.++.
T Consensus         1 plPd~~~R~~Il~~~l~~~~~~~~~dl~~la~~t~G~SGADi~~l~~eA~~~a~~~~--~~~i~~~d~~~Al~~v~   74 (78)
T 3kw6_A            1 PPPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER--RVHVTQEDFEMAVAKVM   74 (78)
T ss_dssp             CCCCHHHHHHHHHHHHTTSEECTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT--CSEECHHHHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHHhcCCCCCCccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHH
Confidence            689999999999999999998889999999999999999999999999999999885  56899999999998764

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=99.20  E-value=1.7e-09  Score=135.26  Aligned_cols=129  Identities=20%  Similarity=0.250  Sum_probs=92.0

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR  132 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~  132 (611)
                      ..+..+.||+|||||.+++.+|+.+|.+++.++|++-.+      ...+..+|..+.+.     +++.++||++.+-.  
T Consensus       604 ~~gg~~~GPaGtGKTet~k~La~~lgr~~~vfnC~~~~d------~~~~g~i~~G~~~~-----GaW~cfDEfNrl~~--  670 (3245)
T 3vkg_A          604 RMGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFD------LQAMSRIFVGLCQC-----GAWGCFDEFNRLEE--  670 (3245)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHTTCCEEEEECSSCCC------HHHHHHHHHHHHHH-----TCEEEEETTTSSCH--
T ss_pred             cCCCCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCCCCCC------HHHHHHHHhhHhhc-----CcEEEehhhhcCCH--
Confidence            357789999999999999999999999999999986433      23455666665543     67999999998743  


Q ss_pred             CCCchhhHHHHHHHHH-------HHhcC--------CCCCCCCCcEEEEEeecC----cccccHHhhccCCcceEEEccC
Q 007255          133 DHRREQDVRIASQLFT-------LMDSN--------KPSKTSVPHVVVVASTNR----VDAIDPALRRSGRFDAEVEVTV  193 (611)
Q Consensus       133 ~~~~~~~~~~~~~ll~-------~l~~~--------~~~~~~~~~v~ii~ttn~----~~~l~~~l~~~~Rf~~~i~~~~  193 (611)
                              ++++.+..       .+...        .....-.+.+.+++|+|+    ...+++.++.  || +.+.+..
T Consensus       671 --------~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~--lF-r~v~m~~  739 (3245)
T 3vkg_A          671 --------RILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKK--LF-RSMAMIK  739 (3245)
T ss_dssp             --------HHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHT--TE-EEEECCS
T ss_pred             --------HHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHh--hc-EEEEEeC
Confidence                    22222222       22111        111112345789999996    3489999998  88 4799999


Q ss_pred             CCHHHHHHHHHH
Q 007255          194 PTAEERFEILKL  205 (611)
Q Consensus       194 p~~~~r~~Il~~  205 (611)
                      ||.+...+|+-.
T Consensus       740 Pd~~~i~ei~L~  751 (3245)
T 3vkg_A          740 PDREMIAQVMLY  751 (3245)
T ss_dssp             CCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            999988887644

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.20  E-value=1.1e-10  Score=128.99  Aligned_cols=219  Identities=27%  Similarity=0.324  Sum_probs=128.5

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---EEEEcccccc--
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---LTVISPHSVH--   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---~~~v~~~~~~--   90 (611)
                      +.+++++|++.+++.+...+..               ..+++|+||||||||+++++++..+...   .+.+......  
T Consensus        38 ~~l~~i~G~~~~l~~l~~~i~~---------------g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~~~~~~~~~~~~~  102 (604)
T 3k1j_A           38 KLIDQVIGQEHAVEVIKTAANQ---------------KRHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPEDEN  102 (604)
T ss_dssp             SHHHHCCSCHHHHHHHHHHHHT---------------TCCEEEECCTTSSHHHHHHHHHHTSCCSSCEEEEEECCTTCTT
T ss_pred             cccceEECchhhHhhccccccC---------------CCEEEEEeCCCCCHHHHHHHHhccCCcccCCeEEEeCCccccc
Confidence            6789999999999888777642               3599999999999999999999988532   1222111100  


Q ss_pred             ccc-----ccchH-------------------------------------------------HHHHHHHHHHH-------
Q 007255           91 KAH-----VGESE-------------------------------------------------KALREAFSQAS-------  109 (611)
Q Consensus        91 ~~~-----~~~~~-------------------------------------------------~~l~~~f~~~~-------  109 (611)
                      ...     .+...                                                 .....+|....       
T Consensus       103 ~p~i~~~p~g~~~~~~e~~~~~~~~~~~~r~~~~~~~~~~~~~nl~v~~~~~~~~~~v~~~~~~~~~L~G~~~~~~~~~g  182 (604)
T 3k1j_A          103 MPRIKTVPACQGRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKAPFIDATGAHAGALLGDVRHDPFQSG  182 (604)
T ss_dssp             SCEEEEEETTHHHHHHHHHHHHHHHHTCC-----------CCCEEEECCTTCSSCCEEECTTCCHHHHHCEECCCCC---
T ss_pred             CCcEEEEecchHHHHHHHHHHhhccchhhhhhcccccccccccceeeccccCCCCCEEEcCCCCHHhcCceEEechhhcC
Confidence            000     00000                                                 00111111000       


Q ss_pred             ------------hhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC---------------CCCCCc
Q 007255          110 ------------SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS---------------KTSVPH  162 (611)
Q Consensus       110 ------------~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~---------------~~~~~~  162 (611)
                                  .......+++|||||++.+.+          ..+..|+..|+.....               ...+.+
T Consensus       183 ~~~~g~~~~i~~g~~~~a~~gvL~LDEi~~l~~----------~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~  252 (604)
T 3k1j_A          183 GLGTPAHERVEPGMIHRAHKGVLFIDEIATLSL----------KMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCD  252 (604)
T ss_dssp             -CCCCGGGGEECCHHHHTTTSEEEETTGGGSCH----------HHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECC
T ss_pred             CccccccccccCceeeecCCCEEEEechhhCCH----------HHHHHHHHHHHcCcEEecccccccccccCCCCcccee
Confidence                        000112467999999998743          5678888888753211               111246


Q ss_pred             EEEEEeecCc--ccccHHhhccCCcc---eEEEccCC---CHHHHHHHHHHhhcCC------CCCCcccHHHHHHhc---
Q 007255          163 VVVVASTNRV--DAIDPALRRSGRFD---AEVEVTVP---TAEERFEILKLYTKKV------PLDANVDLEAIATSC---  225 (611)
Q Consensus       163 v~ii~ttn~~--~~l~~~l~~~~Rf~---~~i~~~~p---~~~~r~~Il~~~~~~~------~~~~~~~~~~la~~~---  225 (611)
                      +.+|++||+.  +.++++|++  ||.   ..+.++..   +.+....+++.+....      ..-.+..+..+....   
T Consensus       253 ~~vI~atn~~~~~~l~~~l~~--R~~v~~i~i~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ls~eAl~~Li~~~~r~  330 (604)
T 3k1j_A          253 FVLVAAGNLDTVDKMHPALRS--RIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVEEIVREAQKR  330 (604)
T ss_dssp             CEEEEEECHHHHHHSCHHHHH--HHHHHSEEEECCSEEECCHHHHHHHHHHHHHHHHHHCSSCCBBHHHHHHHHHHHHHT
T ss_pred             EEEEEecCHHHHhhcCHHHHH--HhhccceEeeccccccCCHHHHHHHHHHHHHHHhhccCcccCCHHHHHHHHHHHhhh
Confidence            7899999986  689999999  885   45565442   4555666665443221      111122344444433   


Q ss_pred             cCC------ccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHH
Q 007255          226 NGY------VGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHAR  269 (611)
Q Consensus       226 ~g~------~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~  269 (611)
                      .|-      +.+++.++++.|...+.....        ..++.+|+..+.
T Consensus       331 ~g~r~~l~~~~R~l~~llr~A~~~A~~~~~--------~~I~~edv~~A~  372 (604)
T 3k1j_A          331 AGRKGHLTLRLRDLGGIVRAAGDIAVKKGK--------KYVEREDVIEAV  372 (604)
T ss_dssp             TCSTTEEECCHHHHHHHHHHHHHHHHHTTC--------SSBCHHHHHHHH
T ss_pred             hccccccccCHHHHHHHHHHHHHHHHhcCc--------ccccHHHHHHHH
Confidence            442      568889999988765543222        135566665554

>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone, chaperone-protein binding complex; HET: DNA; 3.80A {Saccharomyces cerevisiae} PDB: 4a3v_B*

Probab=99.20  E-value=4e-11  Score=96.51  Aligned_cols=85  Identities=29%  Similarity=0.500  Sum_probs=67.4

Q ss_pred             CHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCCCCCHH-
Q 007255          462 DLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKE-  540 (611)
Q Consensus       462 ~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~~~~~~-  540 (611)
                      |.++|.+||+.++++.++..++|++.||+.|+||||+||.++|++|+..|+++.  ...|+..||..|+.++.+..... 
T Consensus         2 d~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t~G~SGADl~~l~~eAa~~a~r~~--~~~i~~~df~~Al~~v~~~~~~~~   79 (88)
T 3vlf_B            2 DLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRAR--RKVATEKDFLKAVDKVISGYKKFS   79 (88)
T ss_dssp             CSSHHHHHHHHHHTTSCBCSCCCHHHHHHTCSSCCHHHHHHHHHHHHHHHHHHS--CSSBCHHHHHHHHHHHTC------
T ss_pred             CHHHHHHHHHHHHCCCCCCCccCHHHHHHHcCCCcHHHHHHHHHHHHHHHHHhc--cccCCHHHHHHHHHHHhcCccccc
Confidence            567899999999999999999999999999999999999999999999999885  45799999999999998876443 


Q ss_pred             HHHHHHHH
Q 007255          541 EIDSYSSF  548 (611)
Q Consensus       541 ~~~~~~~~  548 (611)
                      ....|..|
T Consensus        80 ~~~~y~~w   87 (88)
T 3vlf_B           80 STSRYMQY   87 (88)
T ss_dssp             --------
T ss_pred             chhHHhcc
Confidence            35667666

>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B* 2dvw_B*

Probab=99.20  E-value=2.7e-11  Score=96.61  Aligned_cols=81  Identities=23%  Similarity=0.476  Sum_probs=67.8

Q ss_pred             CHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCCCCCHHH
Q 007255          462 DLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSLKPALTKEE  541 (611)
Q Consensus       462 ~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~~~~~~~~~  541 (611)
                      |.++|.+||+.++++++...++++..||+.|+||||+||.++|++|+..++++.  ..+|+..||..++.+++|+++ ++
T Consensus         2 d~~~R~~Il~~~l~~~~~~~~vdl~~la~~t~G~SGADi~~l~~eA~~~a~~~~--~~~i~~~df~~Al~~~~ps~~-~~   78 (83)
T 3aji_B            2 DRRQKRLIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVREN--RYIVLAKDFEKAYKTVIKKDE-QE   78 (83)
T ss_dssp             CHHHHHHHHHHHHTTSCBCTTCCTHHHHTSSCCCCHHHHHHHHHHHHHGGGTSC--CSSBCHHHHHHHHHHHCC------
T ss_pred             CHHHHHHHHHHHhCCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhc--cCCcCHHHHHHHHHHHccCch-HH
Confidence            678999999999999998889999999999999999999999999999998875  467999999999999999988 66


Q ss_pred             HHHH
Q 007255          542 IDSY  545 (611)
Q Consensus       542 ~~~~  545 (611)
                      ++.|
T Consensus        79 l~~y   82 (83)
T 3aji_B           79 HEFY   82 (83)
T ss_dssp             ----
T ss_pred             HHhc
Confidence            6555

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.17  E-value=8.2e-10  Score=116.36  Aligned_cols=209  Identities=14%  Similarity=0.142  Sum_probs=126.4

Q ss_pred             cccCCcHHHHHHHHHHH-HhhhhCchHHHhcCCCCCceEEE--EcCCCCcHHHHHHHHHHHh---------CCcEEEEcc
Q 007255           19 EAIGGNRAAVEALRELI-TFPLLYSSQAQKLGLKWPRGLLL--YGPPGTGKTSLVRAVVREC---------GAHLTVISP   86 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l-~~~~~~~~~~~~~g~~~~~~iLl--~Gp~GtGKT~la~~la~~l---------~~~~~~v~~   86 (611)
                      +.++|.++.++.|.+.+ .......       ...+.+++|  +||+|+|||++++.+++.+         +..++.+++
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~-------~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGA-------GLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNA   94 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSS-------CBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEG
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCC-------CCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEEC
Confidence            67999999999999887 5421110       023568999  9999999999999999876         445677775


Q ss_pred             cccccc--------------c--ccchHHH-HHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHH
Q 007255           87 HSVHKA--------------H--VGESEKA-LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (611)
Q Consensus        87 ~~~~~~--------------~--~~~~~~~-l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~  149 (611)
                      ......              .  .+..... +..+.....   ...++.||+|||+|.+.....    .....+..++..
T Consensus        95 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~---~~~~~~llvlDe~~~l~~~~~----~~~~~l~~l~~~  167 (412)
T 1w5s_A           95 FNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLY---VENHYLLVILDEFQSMLSSPR----IAAEDLYTLLRV  167 (412)
T ss_dssp             GGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHH---HHTCEEEEEEESTHHHHSCTT----SCHHHHHHHHTH
T ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHH---hcCCeEEEEEeCHHHHhhccC----cchHHHHHHHHH
Confidence            321100              0  0111111 122221111   124588999999998854211    012445555666


Q ss_pred             HhcCCCCCCCCCcEEEEEeecCcc---ccc---HHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCC---CCCcccHHH
Q 007255          150 MDSNKPSKTSVPHVVVVASTNRVD---AID---PALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP---LDANVDLEA  220 (611)
Q Consensus       150 l~~~~~~~~~~~~v~ii~ttn~~~---~l~---~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~---~~~~~~~~~  220 (611)
                      +....... ...++.+|++++.++   .++   +.+.+  ++...+.+++++.++..+++...+....   ...+..+..
T Consensus       168 ~~~~~~~~-~~~~v~lI~~~~~~~~~~~l~~~~~~~~~--~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~  244 (412)
T 1w5s_A          168 HEEIPSRD-GVNRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLEL  244 (412)
T ss_dssp             HHHSCCTT-SCCBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHH
T ss_pred             HHhcccCC-CCceEEEEEEeccccHHHHHhhhcchhhh--hcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHH
Confidence            65432100 013688888887654   344   66666  6665699999999999999987654211   112234667


Q ss_pred             HHHhcc------CCccccHHHHHHHHHHHHh
Q 007255          221 IATSCN------GYVGADLEALCREATMSAV  245 (611)
Q Consensus       221 la~~~~------g~~~~dl~~l~~~a~~~a~  245 (611)
                      ++..+.      |. .+.+..++..+...+.
T Consensus       245 i~~~~~~~~~~~G~-p~~~~~l~~~a~~~a~  274 (412)
T 1w5s_A          245 ISDVYGEDKGGDGS-ARRAIVALKMACEMAE  274 (412)
T ss_dssp             HHHHHCGGGTSCCC-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCc-HHHHHHHHHHHHHHHH
Confidence            777777      54 3456666666654443

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=99.04  E-value=3.5e-10  Score=104.72  Aligned_cols=99  Identities=13%  Similarity=0.098  Sum_probs=61.5

Q ss_pred             CCcccccccc----hhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----CCcEEeec
Q 007255          285 PKVTWEDIGG----LRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLS  356 (611)
Q Consensus       285 ~~~~~~~i~g----~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~  356 (611)
                      ...+|+++.+    ++.+.+.+.+++..          +....+.+++|+||||||||+++++++..+    |..++.++
T Consensus         5 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~   74 (180)
T 3ec2_A            5 WNANLDTYHPKNVSQNRALLTIRVFVHN----------FNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFD   74 (180)
T ss_dssp             TTCCSSSCCCCSHHHHHHHHHHHHHHHS----------CCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEE
T ss_pred             hhCccccccCCCHHHHHHHHHHHHHHHh----------ccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEE
Confidence            3456777664    44455555555542          233446789999999999999999999887    66777777


Q ss_pred             chhhccccccchHH-HHHHHHHHHHhcCCcEEEEcccccc
Q 007255          357 GAELYSMYVGESEA-LLRNTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       357 ~~~~~~~~~g~~~~-~~~~~~~~a~~~~p~il~iDeid~l  395 (611)
                      ..++...+...... .....+.  ....|.+|+|||++..
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~~llilDE~~~~  112 (180)
T 3ec2_A           75 TKDLIFRLKHLMDEGKDTKFLK--TVLNSPVLVLDDLGSE  112 (180)
T ss_dssp             HHHHHHHHHHHHHHTCCSHHHH--HHHTCSEEEEETCSSS
T ss_pred             HHHHHHHHHHHhcCchHHHHHH--HhcCCCEEEEeCCCCC
Confidence            77665432211110 0001111  1236789999999754

>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} PDB: 2dzo_B

Probab=98.98  E-value=2.8e-10  Score=90.36  Aligned_cols=80  Identities=21%  Similarity=0.350  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhc-CCCCCHHHH
Q 007255          464 EARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSL-KPALTKEEI  542 (611)
Q Consensus       464 ~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~-~~~~~~~~~  542 (611)
                      ++|.+||+.+++++++..++|++.||+.|+||||+||.++|++|+..++++.  ...|+..||..++.++ .+..+.+++
T Consensus         1 ~~R~~Il~~~l~~~~~~~~vdl~~lA~~t~G~SGADi~~l~~eAa~~ai~~~--~~~i~~~df~~Al~~v~~~~~~~~~~   78 (82)
T 2dzn_B            1 MERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKN--RYVILQSDLEEAYATQVKTDNTVDKF   78 (82)
T ss_dssp             -------------CEECTTCCSTTTTTSSCCCCHHHHHHHHHHHHHHHHHTT--CSEECHHHHHHHHHTTCC--------
T ss_pred             CHHHHHHHHHHcCCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhc--cCCcCHHHHHHHHHHHHcCcCChHHH
Confidence            4689999999999998889999999999999999999999999999999885  4679999999999988 466666665


Q ss_pred             HHH
Q 007255          543 DSY  545 (611)
Q Consensus       543 ~~~  545 (611)
                      +.|
T Consensus        79 ~~y   81 (82)
T 2dzn_B           79 DFY   81 (82)
T ss_dssp             ---
T ss_pred             Hhh
Confidence            544

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=98.86  E-value=1.1e-09  Score=108.77  Aligned_cols=122  Identities=19%  Similarity=0.235  Sum_probs=74.0

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHhCCc--EEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccc
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEAS--FFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~--~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~  397 (611)
                      |+++.+.++|+||||||||++|.++|...+.+  |+.+..++..+.+..+.+..+..+++.+....  +|+||+++.+..
T Consensus       119 Gi~~gsviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~~--LLVIDsI~aL~~  196 (331)
T 2vhj_A          119 HRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHR--VIVIDSLKNVIG  196 (331)
T ss_dssp             EEEESEEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCS--EEEEECCTTTC-
T ss_pred             CCCCCcEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhCC--EEEEeccccccc
Confidence            44555667999999999999999999875544  55552233334444555666666776666544  999999999865


Q ss_pred             cCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhc
Q 007255          398 KRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAAL  446 (611)
Q Consensus       398 ~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al  446 (611)
                      .....+..  ....+.+.+++..|.++....++.+|+++| |...|+++
T Consensus       197 ~~~~~s~~--G~v~~~lrqlL~~L~~~~k~~gvtVIlttn-p~s~deal  242 (331)
T 2vhj_A          197 AAGGNTTS--GGISRGAFDLLSDIGAMAASRGCVVIASLN-PTSNDDKI  242 (331)
T ss_dssp             ------------CCHHHHHHHHHHHHHHHHHTCEEEEECC-CSSCSSSH
T ss_pred             cccccccc--chHHHHHHHHHHHHHHHHhhCCCEEEEEeC-CcccchhH
Confidence            43221110  011244555666555444445677888888 55555544

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.84  E-value=2.4e-09  Score=95.70  Aligned_cols=104  Identities=16%  Similarity=0.207  Sum_probs=66.2

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccC
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR  399 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~  399 (611)
                      +...++|+||+|+|||+++++++..+   |...+.++..++...               +....|++|+|||++.+... 
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~---------------~~~~~~~lLilDE~~~~~~~-   98 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT---------------DAAFEAEYLAVDQVEKLGNE-   98 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC---------------GGGGGCSEEEEESTTCCCSH-
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH---------------HHHhCCCEEEEeCccccChH-
Confidence            34579999999999999999999988   667888887776543               11235789999999875211 


Q ss_pred             CCCCCCCcchhHHHHHHHHHHhcCCCCCCCe-EEEEecC-CCcccc--hhccCCCCccceeec
Q 007255          400 GGSSSTSITVGERLLSTLLTEMDGLEQAKGI-LVLAATN-RPHAID--AALMRPGRFDLVLYV  458 (611)
Q Consensus       400 ~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~-~vI~~tn-~~~~ld--~al~r~gRf~~~i~~  458 (611)
                                ..+.+-.+++.+   ...+.. ++| ||| .|+.+.  +.+.+  |+..-..+
T Consensus        99 ----------~~~~l~~li~~~---~~~g~~~iii-ts~~~p~~l~~~~~L~S--Rl~~g~~~  145 (149)
T 2kjq_A           99 ----------EQALLFSIFNRF---RNSGKGFLLL-GSEYTPQQLVIREDLRT--RMAYCLVY  145 (149)
T ss_dssp             ----------HHHHHHHHHHHH---HHHTCCEEEE-EESSCTTTSSCCHHHHH--HGGGSEEC
T ss_pred             ----------HHHHHHHHHHHH---HHcCCcEEEE-ECCCCHHHccccHHHHH--HHhcCeeE
Confidence                      122233333333   233344 555 555 565443  66666  77644443

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.79  E-value=1.3e-07  Score=96.94  Aligned_cols=184  Identities=23%  Similarity=0.233  Sum_probs=110.2

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc------
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK------   91 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~------   91 (611)
                      -+.++|.++..+.|.+++..           |    ..++++||+|+|||++++.+++..+  .+.+++.....      
T Consensus        11 ~~~~~gR~~el~~L~~~l~~-----------~----~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~~~~~~~~~~~~   73 (350)
T 2qen_A           11 REDIFDREEESRKLEESLEN-----------Y----PLTLLLGIRRVGKSSLLRAFLNERP--GILIDCRELYAERGHIT   73 (350)
T ss_dssp             GGGSCSCHHHHHHHHHHHHH-----------C----SEEEEECCTTSSHHHHHHHHHHHSS--EEEEEHHHHHHTTTCBC
T ss_pred             hHhcCChHHHHHHHHHHHhc-----------C----CeEEEECCCcCCHHHHHHHHHHHcC--cEEEEeecccccccCCC
Confidence            36789999999999887743           1    5899999999999999999999886  55665433210      


Q ss_pred             ---------ccccc---------------------hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHH
Q 007255           92 ---------AHVGE---------------------SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVR  141 (611)
Q Consensus        92 ---------~~~~~---------------------~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~  141 (611)
                               .....                     ....+..++..........+|.+|+|||++.+.....   .....
T Consensus        74 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~---~~~~~  150 (350)
T 2qen_A           74 REELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGS---RGGKE  150 (350)
T ss_dssp             HHHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTT---TTTHH
T ss_pred             HHHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCc---cchhh
Confidence                     00000                     0011222332222211111388999999998854100   01123


Q ss_pred             HHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccH---------HhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCC
Q 007255          142 IASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDP---------ALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPL  212 (611)
Q Consensus       142 ~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~---------~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~  212 (611)
                      +...+...++..       .++.+|.++.....+..         .+.  +|+...+.+++.+.++..+++...+...+.
T Consensus       151 ~~~~L~~~~~~~-------~~~~~il~g~~~~~l~~~l~~~~~~~~l~--~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~  221 (350)
T 2qen_A          151 LLALFAYAYDSL-------PNLKIILTGSEVGLLHDFLKITDYESPLY--GRIAGEVLVKPFDKDTSVEFLKRGFREVNL  221 (350)
T ss_dssp             HHHHHHHHHHHC-------TTEEEEEEESSHHHHHHHHCTTCTTSTTT--TCCCEEEECCCCCHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHhc-------CCeEEEEECCcHHHHHHHHhhcCCCCccc--cCccceeeCCCCCHHHHHHHHHHHHHHcCC
Confidence            445555555542       13555665544221111         122  365568999999999999999876654433


Q ss_pred             C-CcccHHHHHHhccCCcc
Q 007255          213 D-ANVDLEAIATSCNGYVG  230 (611)
Q Consensus       213 ~-~~~~~~~la~~~~g~~~  230 (611)
                      . ....+..+...+.|+..
T Consensus       222 ~~~~~~~~~i~~~tgG~P~  240 (350)
T 2qen_A          222 DVPENEIEEAVELLDGIPG  240 (350)
T ss_dssp             CCCHHHHHHHHHHHTTCHH
T ss_pred             CCCHHHHHHHHHHhCCCHH
Confidence            2 23356777888888754

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=98.78  E-value=6.1e-09  Score=96.29  Aligned_cols=97  Identities=15%  Similarity=0.201  Sum_probs=55.5

Q ss_pred             ccccccCC----cHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEccc
Q 007255           16 KAEEAIGG----NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----GAHLTVISPH   87 (611)
Q Consensus        16 ~~~~~i~G----~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----~~~~~~v~~~   87 (611)
                      .+|+++++    ++.+++.+.+++..          +....+.+++|+||+|||||+++++++..+    |..++.++..
T Consensus         7 ~~f~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~   76 (180)
T 3ec2_A            7 ANLDTYHPKNVSQNRALLTIRVFVHN----------FNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTK   76 (180)
T ss_dssp             CCSSSCCCCSHHHHHHHHHHHHHHHS----------CCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHH
T ss_pred             CccccccCCCHHHHHHHHHHHHHHHh----------ccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence            35666665    44444444444432          223346799999999999999999999877    5555555554


Q ss_pred             ccccccccchHH-HHHHHHHHHHhhhhcCCCeEEEEcccccc
Q 007255           88 SVHKAHVGESEK-ALREAFSQASSHALSGKPSVVFIDEIDAL  128 (611)
Q Consensus        88 ~~~~~~~~~~~~-~l~~~f~~~~~~~~~~~~~il~IDeid~l  128 (611)
                      ++.......... .....+..      ..++.+|+|||++..
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~------~~~~~llilDE~~~~  112 (180)
T 3ec2_A           77 DLIFRLKHLMDEGKDTKFLKT------VLNSPVLVLDDLGSE  112 (180)
T ss_dssp             HHHHHHHHHHHHTCCSHHHHH------HHTCSEEEEETCSSS
T ss_pred             HHHHHHHHHhcCchHHHHHHH------hcCCCEEEEeCCCCC
Confidence            443211100000 00011111      124779999999743

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=98.75  E-value=3e-08  Score=103.26  Aligned_cols=194  Identities=19%  Similarity=0.235  Sum_probs=113.9

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEcccccccccc-
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVISPHSVHKAHV-   94 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~---~~~~~v~~~~~~~~~~-   94 (611)
                      ..++|.....+.+.+.+...           .....+++++|++|||||++++++.....   .+|+.++|+.+..... 
T Consensus       137 ~~~ig~s~~m~~l~~~i~~~-----------a~~~~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~~  205 (387)
T 1ny5_A          137 EEYVFESPKMKEILEKIKKI-----------SCAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFE  205 (387)
T ss_dssp             CCCCCCSHHHHHHHHHHHHH-----------TTCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHH
T ss_pred             hhhhhccHHhhHHHHHHHHh-----------cCCCCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHHH
Confidence            45777777666666655431           12346899999999999999999988764   6899999987543210 


Q ss_pred             ----cch----H---HHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CC
Q 007255           95 ----GES----E---KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KT  158 (611)
Q Consensus        95 ----~~~----~---~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~  158 (611)
                          |..    .   ......|+.+       .+++||||||+.|..          ..+..|+..++.....     ..
T Consensus       206 ~elfg~~~g~~tga~~~~~g~~~~a-------~~gtlfldei~~l~~----------~~q~~Ll~~l~~~~~~~~g~~~~  268 (387)
T 1ny5_A          206 AELFGYEKGAFTGAVSSKEGFFELA-------DGGTLFLDEIGELSL----------EAQAKLLRVIESGKFYRLGGRKE  268 (387)
T ss_dssp             HHHHCBCTTSSTTCCSCBCCHHHHT-------TTSEEEEESGGGCCH----------HHHHHHHHHHHHSEECCBTCCSB
T ss_pred             HHhcCCCCCCCCCcccccCCceeeC-------CCcEEEEcChhhCCH----------HHHHHHHHHHhcCcEEeCCCCce
Confidence                000    0   0001122222       367999999998854          6788899998863211     11


Q ss_pred             CCCcEEEEEeecCc-------ccccHHhhccCCcc-eEEEccCCC--HHHHHHHHHHhhcC----CCCC-Cccc---HHH
Q 007255          159 SVPHVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPT--AEERFEILKLYTKK----VPLD-ANVD---LEA  220 (611)
Q Consensus       159 ~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf~-~~i~~~~p~--~~~r~~Il~~~~~~----~~~~-~~~~---~~~  220 (611)
                      ...++.+|++||..       ..+.+.+..  |+. ..|.+|+..  .++...++.+++..    .... ....   +..
T Consensus       269 ~~~~~rii~at~~~l~~~~~~g~fr~dl~~--rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~  346 (387)
T 1ny5_A          269 IEVNVRILAATNRNIKELVKEGKFREDLYY--RLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQEL  346 (387)
T ss_dssp             EECCCEEEEEESSCHHHHHHTTSSCHHHHH--HHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHH
T ss_pred             eeccEEEEEeCCCCHHHHHHcCCccHHHHH--hhcCCeecCCcchhccccHHHHHHHHHHHHHHHcCCCCCCCCHHHHHH
Confidence            12357899999873       133444443  442 345555553  25555566655432    2211 1122   232


Q ss_pred             HHHhccCCc--cccHHHHHHHHHHHH
Q 007255          221 IATSCNGYV--GADLEALCREATMSA  244 (611)
Q Consensus       221 la~~~~g~~--~~dl~~l~~~a~~~a  244 (611)
                      +..  ..|.  -++|++++..++..+
T Consensus       347 l~~--~~wpGNvreL~~~i~~~~~~~  370 (387)
T 1ny5_A          347 LLS--YPWYGNVRELKNVIERAVLFS  370 (387)
T ss_dssp             HHH--SCCTTHHHHHHHHHHHHHHHC
T ss_pred             HHh--CCCCcHHHHHHHHHHHHHHhC
Confidence            222  3343  368888888877644

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=98.75  E-value=8.1e-08  Score=98.66  Aligned_cols=183  Identities=17%  Similarity=0.211  Sum_probs=110.0

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc-----c--
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH-----K--   91 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~-----~--   91 (611)
                      +.++|.++..+.|.+ +..                ..++++||+|+|||++++.+++.++...+.+++....     .  
T Consensus        13 ~~~~gR~~el~~L~~-l~~----------------~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (357)
T 2fna_A           13 KDFFDREKEIEKLKG-LRA----------------PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYK   75 (357)
T ss_dssp             GGSCCCHHHHHHHHH-TCS----------------SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCCCHH
T ss_pred             HHhcChHHHHHHHHH-hcC----------------CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchhhccccCCCHH
Confidence            568999999988877 521                4899999999999999999999987777777765420     0  


Q ss_pred             ccccc---------------------------------------hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCC
Q 007255           92 AHVGE---------------------------------------SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR  132 (611)
Q Consensus        92 ~~~~~---------------------------------------~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~  132 (611)
                      .....                                       ....+..++....... . +|.+|+|||++.+....
T Consensus        76 ~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-~-~~~vlvlDe~~~~~~~~  153 (357)
T 2fna_A           76 DFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQAS-K-DNVIIVLDEAQELVKLR  153 (357)
T ss_dssp             HHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTC-S-SCEEEEEETGGGGGGCT
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcC-C-CCeEEEEECHHHhhccC
Confidence            00000                                       0011223333322211 1 38899999999886421


Q ss_pred             CCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccH---------HhhccCCcceEEEccCCCHHHHHHHH
Q 007255          133 DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDP---------ALRRSGRFDAEVEVTVPTAEERFEIL  203 (611)
Q Consensus       133 ~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~---------~l~~~~Rf~~~i~~~~p~~~~r~~Il  203 (611)
                      ..      .+...+...++..       .++.+|.+++....+..         .+  .+|+...+.+++++.++..+++
T Consensus       154 ~~------~~~~~l~~~~~~~-------~~~~~i~~g~~~~~l~~~l~~~~~~~~l--~~r~~~~i~l~~l~~~e~~~~l  218 (357)
T 2fna_A          154 GV------NLLPALAYAYDNL-------KRIKFIMSGSEMGLLYDYLRVEDPESPL--FGRAFSTVELKPFSREEAIEFL  218 (357)
T ss_dssp             TC------CCHHHHHHHHHHC-------TTEEEEEEESSHHHHHHHTTTTCTTSTT--TTCCCEEEEECCCCHHHHHHHH
T ss_pred             ch------hHHHHHHHHHHcC-------CCeEEEEEcCchHHHHHHHhccCCCCcc--ccCccceeecCCCCHHHHHHHH
Confidence            00      1233333344432       13556666654322221         12  2365568999999999999999


Q ss_pred             HHhhcCCCCCCcccHHHHHHhccCCccccHHHHH
Q 007255          204 KLYTKKVPLDANVDLEAIATSCNGYVGADLEALC  237 (611)
Q Consensus       204 ~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~  237 (611)
                      ...+.......+ +...+...+.|+... +..++
T Consensus       219 ~~~~~~~~~~~~-~~~~i~~~t~G~P~~-l~~~~  250 (357)
T 2fna_A          219 RRGFQEADIDFK-DYEVVYEKIGGIPGW-LTYFG  250 (357)
T ss_dssp             HHHHHHHTCCCC-CHHHHHHHHCSCHHH-HHHHH
T ss_pred             HHHHHHcCCCCC-cHHHHHHHhCCCHHH-HHHHH
Confidence            876643232222 237888888887542 44443

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.74  E-value=1.5e-08  Score=95.43  Aligned_cols=69  Identities=20%  Similarity=0.301  Sum_probs=46.9

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccccch-HHHHHHHHHHHHhcCCcEEEEcccccc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGES-EALLRNTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~g~~-~~~~~~~~~~a~~~~p~il~iDeid~l  395 (611)
                      .+++|+||||||||++|++++.++   +.+++.++++++........ ...+..++....  .+++|+|||++..
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~lilDei~~~  127 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKLDYIK--KVPVLMLDDLGAE  127 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHHHHHHHHHC---CCCHHHHHHHH--HSSEEEEEEECCC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHHHHHHHHHHhccchHHHHHHHhc--CCCEEEEcCCCCC
Confidence            689999999999999999999988   67788888776654322110 001122233332  3459999999765

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.74  E-value=4.8e-07  Score=92.60  Aligned_cols=191  Identities=20%  Similarity=0.195  Sum_probs=114.7

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc----
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY----  361 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~----  361 (611)
                      ....+.++|.+...+.|.+.+..           +    +.++++||+|+|||++++.+++..+  ++.+++....    
T Consensus         8 ~~~~~~~~gR~~el~~L~~~l~~-----------~----~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~~~~~~~~~   70 (350)
T 2qen_A            8 KTRREDIFDREEESRKLEESLEN-----------Y----PLTLLLGIRRVGKSSLLRAFLNERP--GILIDCRELYAERG   70 (350)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHH-----------C----SEEEEECCTTSSHHHHHHHHHHHSS--EEEEEHHHHHHTTT
T ss_pred             CCChHhcCChHHHHHHHHHHHhc-----------C----CeEEEECCCcCCHHHHHHHHHHHcC--cEEEEeeccccccc
Confidence            33456788999888888887652           2    4799999999999999999999876  4555443221    


Q ss_pred             --------c---ccc-------------------------cchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCC
Q 007255          362 --------S---MYV-------------------------GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST  405 (611)
Q Consensus       362 --------~---~~~-------------------------g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~  405 (611)
                              .   ...                         ......+..+...+....|.+|+|||++.+.....     
T Consensus        71 ~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~-----  145 (350)
T 2qen_A           71 HITREELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGS-----  145 (350)
T ss_dssp             CBCHHHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTT-----
T ss_pred             CCCHHHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCc-----
Confidence                    0   000                         01122222222223323488999999998853100     


Q ss_pred             CcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccc---------hhccCCCCccceeecCCCCHHHHHHHHHHHhcC
Q 007255          406 SITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAID---------AALMRPGRFDLVLYVPPPDLEARHEILRVHTRN  476 (611)
Q Consensus       406 ~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld---------~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~  476 (611)
                        .....+...|-..++.   ..++.+|+|+.....+.         ..+.  ||+...+.+++.+.++..+++...+..
T Consensus       146 --~~~~~~~~~L~~~~~~---~~~~~~il~g~~~~~l~~~l~~~~~~~~l~--~~~~~~i~l~pl~~~e~~~~l~~~~~~  218 (350)
T 2qen_A          146 --RGGKELLALFAYAYDS---LPNLKIILTGSEVGLLHDFLKITDYESPLY--GRIAGEVLVKPFDKDTSVEFLKRGFRE  218 (350)
T ss_dssp             --TTTHHHHHHHHHHHHH---CTTEEEEEEESSHHHHHHHHCTTCTTSTTT--TCCCEEEECCCCCHHHHHHHHHHHHHT
T ss_pred             --cchhhHHHHHHHHHHh---cCCeEEEEECCcHHHHHHHHhhcCCCCccc--cCccceeeCCCCCHHHHHHHHHHHHHH
Confidence              0112333333333332   23566666655432111         1222  466678999999999999999876654


Q ss_pred             CCCC-CcccHHHHHHhCCCCCHHHHHHHHHH
Q 007255          477 MKVG-DDVDLRSIAEETELFTGAELEGLCRE  506 (611)
Q Consensus       477 ~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~  506 (611)
                      .... ++..+..+...+.|+ +.-+..++..
T Consensus       219 ~~~~~~~~~~~~i~~~tgG~-P~~l~~~~~~  248 (350)
T 2qen_A          219 VNLDVPENEIEEAVELLDGI-PGWLVVFGVE  248 (350)
T ss_dssp             TTCCCCHHHHHHHHHHHTTC-HHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHhCCC-HHHHHHHHHH
Confidence            3332 334567888889885 5566666543

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.73  E-value=2.1e-08  Score=89.49  Aligned_cols=60  Identities=20%  Similarity=0.345  Sum_probs=45.7

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL  128 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l  128 (611)
                      +...++|+||+|+|||+++++++..+   |...+.++..++...          . +        ..++.+|+|||++.+
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~----------~-~--------~~~~~lLilDE~~~~   95 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT----------D-A--------AFEAEYLAVDQVEKL   95 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC----------G-G--------GGGCSEEEEESTTCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH----------H-H--------HhCCCEEEEeCcccc
Confidence            45789999999999999999999987   666777777665443          0 0        123779999999875


Q ss_pred             CC
Q 007255          129 CP  130 (611)
Q Consensus       129 ~~  130 (611)
                      ..
T Consensus        96 ~~   97 (149)
T 2kjq_A           96 GN   97 (149)
T ss_dssp             CS
T ss_pred             Ch
Confidence            43

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens}

Probab=98.73  E-value=1.4e-08  Score=80.85  Aligned_cols=77  Identities=32%  Similarity=0.509  Sum_probs=68.6

Q ss_pred             EccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHH
Q 007255          190 EVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHAR  269 (611)
Q Consensus       190 ~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~  269 (611)
                      .-.+|+.++|.+||+.++++.++..++++..++..|.||+|.||.++|++|...++++..        ..++.+||..+.
T Consensus         7 ~~~~Pd~~~R~~IL~~~l~~~~l~~dvdl~~LA~~T~G~SGADL~~l~~eAa~~alr~~~--------~~I~~~df~~Al   78 (86)
T 2krk_A            7 HHSHPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERR--------VHVTQEDFEMAV   78 (86)
T ss_dssp             CCCCCCHHHHHHHHHHHTTTSEECTTCCCHHHHHTCSSCCHHHHHHHHHHHHHHHHHTTC--------SEECHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHcC--------CCCCHHHHHHHH
Confidence            457899999999999999999888889999999999999999999999999999988652        468999999988


Q ss_pred             hccCC
Q 007255          270 SVVGP  274 (611)
Q Consensus       270 ~~i~~  274 (611)
                      ..+.|
T Consensus        79 ~~v~p   83 (86)
T 2krk_A           79 AKVMQ   83 (86)
T ss_dssp             HHHHC
T ss_pred             HHHcc
Confidence            77654

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.70  E-value=1.3e-08  Score=95.36  Aligned_cols=126  Identities=17%  Similarity=0.143  Sum_probs=78.2

Q ss_pred             CcceeCCCCCChHHHHHHHHHHh--------C-CcEEeecchhhccccc----------cc-----hHHHHHHHHHHHHh
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAA--------E-ASFFSLSGAELYSMYV----------GE-----SEALLRNTFQRARL  381 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~--------~-~~~~~~~~~~~~~~~~----------g~-----~~~~~~~~~~~a~~  381 (611)
                      -.|++|+||+|||++|.+.+...        | .+++..+..++.....          ..     ....+...+.. ..
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~-~~   85 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKSTDEQLSAHDMYEWIKK-PE   85 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEEEECCTTTCSSCCSSCEEGGGHHHHTTS-GG
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccccchhhhhccccCcccccHHHHHHHhhc-cc
Confidence            46899999999999998865442        3 5565555554432221          11     11122222111 22


Q ss_pred             cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCC
Q 007255          382 AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPP  461 (611)
Q Consensus       382 ~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p  461 (611)
                      ..++||+|||++.+++.+.....    . .    .++..++. .....+-+|.+|+.++.++.++++  |++..++++.|
T Consensus        86 ~~~~vliIDEAq~l~~~~~~~~e----~-~----rll~~l~~-~r~~~~~iil~tq~~~~l~~~lr~--ri~~~~~l~~~  153 (199)
T 2r2a_A           86 NIGSIVIVDEAQDVWPARSAGSK----I-P----ENVQWLNT-HRHQGIDIFVLTQGPKLLDQNLRT--LVRKHYHIASN  153 (199)
T ss_dssp             GTTCEEEETTGGGTSBCCCTTCC----C-C----HHHHGGGG-TTTTTCEEEEEESCGGGBCHHHHT--TEEEEEEEEEC
T ss_pred             cCceEEEEEChhhhccCccccch----h-H----HHHHHHHh-cCcCCeEEEEECCCHHHHhHHHHH--HhheEEEEcCc
Confidence            44779999999999765432111    1 1    24445542 234456677788889999999988  99999998876


Q ss_pred             CHH
Q 007255          462 DLE  464 (611)
Q Consensus       462 ~~~  464 (611)
                      ...
T Consensus       154 ~~~  156 (199)
T 2r2a_A          154 KMG  156 (199)
T ss_dssp             SSC
T ss_pred             ccC
Confidence            543

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=98.70  E-value=5.4e-08  Score=100.98  Aligned_cols=209  Identities=19%  Similarity=0.118  Sum_probs=117.3

Q ss_pred             ccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHH-HHHhCCcEEeec-c---hhhcccccc
Q 007255          292 IGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAA-AHAAEASFFSLS-G---AELYSMYVG  366 (611)
Q Consensus       292 i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~al-a~~~~~~~~~~~-~---~~~~~~~~g  366 (611)
                      |.|++.+|+.+.-.+......        .+..-++||.|+||| ||++|+++ +..+....+... .   ..+.....+
T Consensus       215 I~G~e~vK~aLll~L~GG~~k--------~rgdihVLL~G~PGt-KS~Lar~i~~~i~pR~~ft~g~~ss~~gLt~s~r~  285 (506)
T 3f8t_A          215 LPGAEEVGKMLALQLFSCVGK--------NSERLHVLLAGYPVV-CSEILHHVLDHLAPRGVYVDLRRTELTDLTAVLKE  285 (506)
T ss_dssp             STTCHHHHHHHHHHHTTCCSS--------GGGCCCEEEESCHHH-HHHHHHHHHHHTCSSEEEEEGGGCCHHHHSEEEEE
T ss_pred             cCCCHHHHHHHHHHHcCCccc--------cCCceeEEEECCCCh-HHHHHHHHHHHhCCCeEEecCCCCCccCceEEEEc
Confidence            789999998887776541111        122237999999999 99999999 776544333211 0   111111000


Q ss_pred             c--hHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC-------CCCCCeEEEEecC
Q 007255          367 E--SEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL-------EQAKGILVLAATN  437 (611)
Q Consensus       367 ~--~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~-------~~~~~~~vI~~tn  437 (611)
                      .  .. .-...+..   .+..|+|+||++.+              ....+..|+..|+.-       .-+.++.||+|+|
T Consensus       286 ~tG~~-~~~G~l~L---AdgGvl~lDEIn~~--------------~~~~qsaLlEaMEe~~VtI~G~~lparf~VIAA~N  347 (506)
T 3f8t_A          286 DRGWA-LRAGAAVL---ADGGILAVDHLEGA--------------PEPHRWALMEAMDKGTVTVDGIALNARCAVLAAIN  347 (506)
T ss_dssp             SSSEE-EEECHHHH---TTTSEEEEECCTTC--------------CHHHHHHHHHHHHHSEEEETTEEEECCCEEEEEEC
T ss_pred             CCCcc-cCCCeeEE---cCCCeeehHhhhhC--------------CHHHHHHHHHHHhCCcEEECCEEcCCCeEEEEEeC
Confidence            0  00 00001111   23359999999876              356778888888631       1245789999999


Q ss_pred             CCc-----------ccchhccCCCCcccee-ecCCCCHHH-------------HHHHHHHHhc--CCCC-CCcccHHHHH
Q 007255          438 RPH-----------AIDAALMRPGRFDLVL-YVPPPDLEA-------------RHEILRVHTR--NMKV-GDDVDLRSIA  489 (611)
Q Consensus       438 ~~~-----------~ld~al~r~gRf~~~i-~~~~p~~~~-------------r~~il~~~~~--~~~~-~~~~~~~~la  489 (611)
                      ..+           .|+++++.  |||..+ ..+.|+.+.             ..+.+. +.+  .... .++...+.+.
T Consensus       348 P~~~yd~~~s~~~~~Lp~alLD--RFDLi~i~~d~pd~e~d~e~~~~~ls~e~L~~yi~-~ar~~~~~p~ls~ea~~yI~  424 (506)
T 3f8t_A          348 PGEQWPSDPPIARIDLDQDFLS--HFDLIAFLGVDPRPGEPEEQDTEVPSYTLLRRYLL-YAIREHPAPELTEEARKRLE  424 (506)
T ss_dssp             CCC--CCSCGGGGCCSCHHHHT--TCSEEEETTC--------------CCHHHHHHHHH-HHHHHCSCCEECHHHHHHHH
T ss_pred             cccccCCCCCccccCCChHHhh--heeeEEEecCCCChhHhhcccCCCCCHHHHHHHHH-HHHhcCCCceeCHHHHHHHH
Confidence            764           68889998  998543 345555433             112221 222  1111 1111111111


Q ss_pred             -----------H------hCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhh
Q 007255          490 -----------E------ETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDS  532 (611)
Q Consensus       490 -----------~------~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~  532 (611)
                                 .      ..-|.|++.+..+++.|...|..+.  ...++.+|+..|+.-
T Consensus       425 ~~y~~tR~~~~~~~~~~~~~~giSpR~leaLiRlA~A~A~L~g--R~~V~~eDV~~Ai~L  482 (506)
T 3f8t_A          425 HWYETRREEVEERLGMGLPTLPVTRRQLESVERLAKAHARMRL--SDDVEPEDVDIAAEL  482 (506)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCCCCCHHHHHHHHHHHHHHHHHTT--CSEECHHHHHHHHHH
T ss_pred             HHHHHHhcCcccccccccccccccHHHHHHHHHHHHHHHHHcC--cCCCCHHHHHHHHHH
Confidence                       0      2347888888888888877776654  445777777777643

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=98.69  E-value=3.8e-08  Score=102.10  Aligned_cols=151  Identities=15%  Similarity=0.063  Sum_probs=87.1

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHH-HHHhCCcEEEEcc-c---ccccc
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAV-VRECGAHLTVISP-H---SVHKA   92 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~l-a~~l~~~~~~v~~-~---~~~~~   92 (611)
                      +..|.|++.+|..|.-.+.....  .      .+...|+||.|+||| ||++++++ ++.+....+.... +   .+...
T Consensus       212 IapI~G~e~vK~aLll~L~GG~~--k------~rgdihVLL~G~PGt-KS~Lar~i~~~i~pR~~ft~g~~ss~~gLt~s  282 (506)
T 3f8t_A          212 IAPLPGAEEVGKMLALQLFSCVG--K------NSERLHVLLAGYPVV-CSEILHHVLDHLAPRGVYVDLRRTELTDLTAV  282 (506)
T ss_dssp             HCCSTTCHHHHHHHHHHHTTCCS--S------GGGCCCEEEESCHHH-HHHHHHHHHHHTCSSEEEEEGGGCCHHHHSEE
T ss_pred             hcccCCCHHHHHHHHHHHcCCcc--c------cCCceeEEEECCCCh-HHHHHHHHHHHhCCCeEEecCCCCCccCceEE
Confidence            34488999887777655422100  0      122348999999999 99999999 6665443322111 0   01100


Q ss_pred             cccchHHHH-HHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC---CCCCcEEEEEe
Q 007255           93 HVGESEKAL-REAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK---TSVPHVVVVAS  168 (611)
Q Consensus        93 ~~~~~~~~l-~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~---~~~~~v~ii~t  168 (611)
                      ..+.+...+ ...+.       ....+++|+||++.+.+          ..+..|++.|++..-+.   ..+.++.+|+|
T Consensus       283 ~r~~tG~~~~~G~l~-------LAdgGvl~lDEIn~~~~----------~~qsaLlEaMEe~~VtI~G~~lparf~VIAA  345 (506)
T 3f8t_A          283 LKEDRGWALRAGAAV-------LADGGILAVDHLEGAPE----------PHRWALMEAMDKGTVTVDGIALNARCAVLAA  345 (506)
T ss_dssp             EEESSSEEEEECHHH-------HTTTSEEEEECCTTCCH----------HHHHHHHHHHHHSEEEETTEEEECCCEEEEE
T ss_pred             EEcCCCcccCCCeeE-------EcCCCeeehHhhhhCCH----------HHHHHHHHHHhCCcEEECCEEcCCCeEEEEE
Confidence            000000000 00111       12357999999998754          67889999998632111   22346899999


Q ss_pred             ecCcc-----------cccHHhhccCCcceEE-EccCCCH
Q 007255          169 TNRVD-----------AIDPALRRSGRFDAEV-EVTVPTA  196 (611)
Q Consensus       169 tn~~~-----------~l~~~l~~~~Rf~~~i-~~~~p~~  196 (611)
                      +|+..           .+++++++  ||+..+ .++.|+.
T Consensus       346 ~NP~~~yd~~~s~~~~~Lp~alLD--RFDLi~i~~d~pd~  383 (506)
T 3f8t_A          346 INPGEQWPSDPPIARIDLDQDFLS--HFDLIAFLGVDPRP  383 (506)
T ss_dssp             ECCCC--CCSCGGGGCCSCHHHHT--TCSEEEETTC----
T ss_pred             eCcccccCCCCCccccCCChHHhh--heeeEEEecCCCCh
Confidence            99964           78899998  997543 4455543

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens}

Probab=98.69  E-value=3.1e-08  Score=77.63  Aligned_cols=73  Identities=34%  Similarity=0.555  Sum_probs=65.5

Q ss_pred             cCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhc
Q 007255          192 TVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (611)
Q Consensus       192 ~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~  271 (611)
                      |+|+.++|.+||+.++++.....++++..++..|+||+|.||.++|++|...++++..        ..++.+||..+...
T Consensus         1 plPd~~~R~~Il~~~l~~~~~~~~~dl~~la~~t~G~SGADi~~l~~eA~~~a~~~~~--------~~i~~~d~~~Al~~   72 (78)
T 3kw6_A            1 PPPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERR--------VHVTQEDFEMAVAK   72 (78)
T ss_dssp             CCCCHHHHHHHHHHHHTTSEECTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTC--------SEECHHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHHhcCCCCCCccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhCC--------CCCCHHHHHHHHHH
Confidence            6899999999999999999888889999999999999999999999999999988643        35888999888765


Q ss_pred             c
Q 007255          272 V  272 (611)
Q Consensus       272 i  272 (611)
                      +
T Consensus        73 v   73 (78)
T 3kw6_A           73 V   73 (78)
T ss_dssp             H
T ss_pred             H
Confidence            4

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=98.68  E-value=3.2e-08  Score=102.98  Aligned_cols=182  Identities=16%  Similarity=0.194  Sum_probs=104.6

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc-------------cccchHHHHHHHHHHHHhcCCcEE
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM-------------YVGESEALLRNTFQRARLAAPSII  387 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~-------------~~g~~~~~~~~~~~~a~~~~p~il  387 (611)
                      ..+++++|++||||+++|+++....   +.+|+.++++.+...             +.|.... ....|..|   ...+|
T Consensus       160 ~~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~~~elfg~~~g~~tga~~~-~~g~~~~a---~~gtl  235 (387)
T 1ny5_A          160 ECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGAVSS-KEGFFELA---DGGTL  235 (387)
T ss_dssp             CSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCTTSSTTCCSC-BCCHHHHT---TTSEE
T ss_pred             CCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHHHHHhcCCCCCCCCCcccc-cCCceeeC---CCcEE
Confidence            3468999999999999999999876   478999998765331             1111100 11223333   34599


Q ss_pred             EEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC---------CCCCeEEEEecCCCc-------ccchhccCCCC
Q 007255          388 FFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE---------QAKGILVLAATNRPH-------AIDAALMRPGR  451 (611)
Q Consensus       388 ~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~~~vI~~tn~~~-------~ld~al~r~gR  451 (611)
                      |+|||+.+              ....+..|+..|+.-.         ...++.+|+|||..-       .+.+.|..  |
T Consensus       236 fldei~~l--------------~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~~~~g~fr~dl~~--r  299 (387)
T 1ny5_A          236 FLDEIGEL--------------SLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGKFREDLYY--R  299 (387)
T ss_dssp             EEESGGGC--------------CHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTSSCHHHHH--H
T ss_pred             EEcChhhC--------------CHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCCCCHHHHHHcCCccHHHHH--h
Confidence            99999987              2456777887775311         112578999999742       12223322  3


Q ss_pred             cc-ceeecCCCCH--HHHHHHHHHHhc----CCCCC----CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhccccc
Q 007255          452 FD-LVLYVPPPDL--EARHEILRVHTR----NMKVG----DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATA  520 (611)
Q Consensus       452 f~-~~i~~~~p~~--~~r~~il~~~~~----~~~~~----~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~  520 (611)
                      +. ..|.+|+...  ++...+++.+++    ++...    ++..+..|.....--+-++++++++.+...+-     ...
T Consensus       300 l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~l~~~~wpGNvreL~~~i~~~~~~~~-----~~~  374 (387)
T 1ny5_A          300 LGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSE-----GKF  374 (387)
T ss_dssp             HTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCC-----SSE
T ss_pred             hcCCeecCCcchhccccHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhCC-----CCc
Confidence            33 2344443322  344444444332    22222    22334555554432245688888888776542     235


Q ss_pred             ccHHHHHHHH
Q 007255          521 VRNRHFQTVK  530 (611)
Q Consensus       521 i~~~~~~~~l  530 (611)
                      |+..|+...+
T Consensus       375 i~~~~l~~~~  384 (387)
T 1ny5_A          375 IDRGELSCLV  384 (387)
T ss_dssp             ECHHHHHHHC
T ss_pred             CcHHHCcHhh
Confidence            7777765443

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=98.67  E-value=2.2e-07  Score=95.42  Aligned_cols=188  Identities=16%  Similarity=0.074  Sum_probs=113.2

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc-----
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY-----  361 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~-----  361 (611)
                      ...+.++|.+...+.|.+ +..                ..++++||+|+|||++++.+++..+..++.+++....     
T Consensus        10 ~~~~~~~gR~~el~~L~~-l~~----------------~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (357)
T 2fna_A           10 DNRKDFFDREKEIEKLKG-LRA----------------PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYI   72 (357)
T ss_dssp             CSGGGSCCCHHHHHHHHH-TCS----------------SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCC
T ss_pred             CCHHHhcChHHHHHHHHH-hcC----------------CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchhhccccCC
Confidence            345678898888887777 541                3689999999999999999999987777777655320     


Q ss_pred             c---------------------------cc-----cc---c------hHHHHHHHHHHHHhc--CCcEEEEccccccccc
Q 007255          362 S---------------------------MY-----VG---E------SEALLRNTFQRARLA--APSIIFFDEADVVGAK  398 (611)
Q Consensus       362 ~---------------------------~~-----~g---~------~~~~~~~~~~~a~~~--~p~il~iDeid~l~~~  398 (611)
                      .                           ..     .+   .      ....+..++......  .|.+|+|||++.+...
T Consensus        73 ~~~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~  152 (357)
T 2fna_A           73 SYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKL  152 (357)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGC
T ss_pred             CHHHHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhcc
Confidence            0                           00     00   0      011234445444432  3889999999988531


Q ss_pred             CCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchh-----cc--CCCCccceeecCCCCHHHHHHHHH
Q 007255          399 RGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAA-----LM--RPGRFDLVLYVPPPDLEARHEILR  471 (611)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~a-----l~--r~gRf~~~i~~~~p~~~~r~~il~  471 (611)
                      .      +.. ....+..+...      ..++.+|+|++....+...     ..  -.||+...+.+++.+.++..+++.
T Consensus       153 ~------~~~-~~~~l~~~~~~------~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~  219 (357)
T 2fna_A          153 R------GVN-LLPALAYAYDN------LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLR  219 (357)
T ss_dssp             T------TCC-CHHHHHHHHHH------CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHH
T ss_pred             C------chh-HHHHHHHHHHc------CCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHH
Confidence            0      001 11222333222      1356666666654322211     00  124666789999999999999998


Q ss_pred             HHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHH
Q 007255          472 VHTRNMKVGDDVDLRSIAEETELFTGAELEGLCRE  506 (611)
Q Consensus       472 ~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~  506 (611)
                      ..+.......+ +...+...+.|+ +..+..++..
T Consensus       220 ~~~~~~~~~~~-~~~~i~~~t~G~-P~~l~~~~~~  252 (357)
T 2fna_A          220 RGFQEADIDFK-DYEVVYEKIGGI-PGWLTYFGFI  252 (357)
T ss_dssp             HHHHHHTCCCC-CHHHHHHHHCSC-HHHHHHHHHH
T ss_pred             HHHHHcCCCCC-cHHHHHHHhCCC-HHHHHHHHHH
Confidence            76543222222 237888899995 5566666554

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=98.66  E-value=4.9e-08  Score=100.79  Aligned_cols=191  Identities=18%  Similarity=0.284  Sum_probs=113.0

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc--EEEEcccccccccccc
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--LTVISPHSVHKAHVGE   96 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~--~~~v~~~~~~~~~~~~   96 (611)
                      ..++|.......+.+.+....           ....+++++|++||||+.+++++....+..  ++.++|..+.....  
T Consensus       129 ~~~ig~s~~~~~~~~~~~~~a-----------~~~~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~--  195 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPKIA-----------KSKAPVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELA--  195 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHH-----------TSCSCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTH--
T ss_pred             ccccccchHHHHHHhhhhhhh-----------ccchhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHH--
Confidence            356777766666665543211           234679999999999999999999877543  99999987643211  


Q ss_pred             hHHHH---------------HHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC----
Q 007255           97 SEKAL---------------REAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK----  157 (611)
Q Consensus        97 ~~~~l---------------~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~----  157 (611)
                       +..+               ...|+.+       .++.||+|||+.|.+          ..+..|+..++......    
T Consensus       196 -~~~lfg~~~g~~tga~~~~~g~~~~a-------~~gtlfldei~~l~~----------~~Q~~Ll~~l~~~~~~~~g~~  257 (368)
T 3dzd_A          196 -ESELFGHEKGAFTGALTRKKGKLELA-------DQGTLFLDEVGELDQ----------RVQAKLLRVLETGSFTRLGGN  257 (368)
T ss_dssp             -HHHHHEECSCSSSSCCCCEECHHHHT-------TTSEEEEETGGGSCH----------HHHHHHHHHHHHSEECCBTCC
T ss_pred             -HHHhcCccccccCCcccccCChHhhc-------CCCeEEecChhhCCH----------HHHHHHHHHHHhCCcccCCCC
Confidence             1100               1123322       356999999998855          67889999998643221    


Q ss_pred             -CCCCcEEEEEeecCc-------ccccHHhhccCCcc-eEEEccCCCH--HHHHHHHHHhhcCC----CCC-Cccc---H
Q 007255          158 -TSVPHVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPTA--EERFEILKLYTKKV----PLD-ANVD---L  218 (611)
Q Consensus       158 -~~~~~v~ii~ttn~~-------~~l~~~l~~~~Rf~-~~i~~~~p~~--~~r~~Il~~~~~~~----~~~-~~~~---~  218 (611)
                       ....++.+|++||..       ..+.+.+..  |+. ..|.+|+...  ++...++++++...    ... ....   +
T Consensus       258 ~~~~~~~rii~at~~~l~~~v~~g~fr~dL~~--rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~  335 (368)
T 3dzd_A          258 QKIEVDIRVISATNKNLEEEIKKGNFREDLYY--RLSVFQIYLPPLRERGKDVILLAEYFLKKFAKEYKKNCFELSEETK  335 (368)
T ss_dssp             CBEECCCEEEEEESSCHHHHHHTTSSCHHHHH--HHTSEEEECCCGGGSTTHHHHHHHHHHHHHHHHTTCCCCCBCHHHH
T ss_pred             cceeeeeEEEEecCCCHHHHHHcCCccHHHHH--HhCCeEEeCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHH
Confidence             112256789998863       123344544  443 3567777655  56666666655332    111 1112   3


Q ss_pred             HHHHHhc-cCCccccHHHHHHHHHHH
Q 007255          219 EAIATSC-NGYVGADLEALCREATMS  243 (611)
Q Consensus       219 ~~la~~~-~g~~~~dl~~l~~~a~~~  243 (611)
                      +.+.... .| +-+++++++..++..
T Consensus       336 ~~L~~~~wpG-NvreL~n~i~~~~~~  360 (368)
T 3dzd_A          336 EYLMKQEWKG-NVRELKNLIERAVIL  360 (368)
T ss_dssp             HHHHTCCCTT-HHHHHHHHHHHHHHT
T ss_pred             HHHHhCCCCc-HHHHHHHHHHHHHHh
Confidence            3333221 22 336777777776643

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=98.62  E-value=2.5e-08  Score=102.64  Aligned_cols=119  Identities=21%  Similarity=0.227  Sum_probs=78.3

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccc-c
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA-K  398 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~-~  398 (611)
                      +++++..++|+||||+|||+++++++...+..++.+..+.-  .    ....+.      ...+..++++||++.+.. .
T Consensus       165 ~i~~~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~~~~--~----~~~~lg------~~~q~~~~l~dd~~~~~~~~  232 (377)
T 1svm_A          165 NIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLD--R----LNFELG------VAIDQFLVVFEDVKGTGGES  232 (377)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTT--T----HHHHHG------GGTTCSCEEETTCCCSTTTT
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEeccch--h----HHHHHH------HhcchhHHHHHHHHHHHHHH
Confidence            67778889999999999999999999998877665433221  0    000111      123445889999998764 2


Q ss_pred             CCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCC
Q 007255          399 RGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPP  460 (611)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~  460 (611)
                      ++.....  ..  .....+...++|     .+.++++||+++.+ +++++|||++..++...
T Consensus       233 r~l~~~~--~~--~~~~~l~~~ldG-----~v~v~~~tn~~~~l-~alf~pg~ld~~~~~l~  284 (377)
T 1svm_A          233 RDLPSGQ--GI--NNLDNLRDYLDG-----SVKVNLEKKHLNKR-TQIFPPGIVTMNEYSVP  284 (377)
T ss_dssp             TTCCCCS--HH--HHHHTTHHHHHC-----SSCEEECCSSSCCE-EECCCCEEEEECSCCCC
T ss_pred             hhccccC--cc--hHHHHHHHHhcC-----CCeEeeccCchhhH-HHhhcCcccChhHHhhc
Confidence            2211111  00  012344455654     34577889999999 79999999998777744

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.57  E-value=2.4e-07  Score=85.57  Aligned_cols=115  Identities=15%  Similarity=0.146  Sum_probs=65.3

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccC
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALC  129 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~  129 (611)
                      +++.+++||+||||||||+++.++|+.+...++.+..+.  ....          +..      .....|++|||+|.- 
T Consensus        55 iPkkn~ili~GPPGtGKTt~a~ala~~l~g~i~~fans~--s~f~----------l~~------l~~~kIiiLDEad~~-  115 (212)
T 1tue_A           55 TPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVISFVNST--SHFW----------LEP------LTDTKVAMLDDATTT-  115 (212)
T ss_dssp             CTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECCCCCSS--SCGG----------GGG------GTTCSSEEEEEECHH-
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhCCCeeeEEecc--chhh----------hcc------cCCCCEEEEECCCch-
Confidence            445578999999999999999999999876543221110  0000          000      011338999999732 


Q ss_pred             CCCCCCchhhHHHHHHHHHHHhcCCC--CCCC-----CCcEEEEEeecCc---ccccHHhhccCCcceEEEccCC
Q 007255          130 PRRDHRREQDVRIASQLFTLMDSNKP--SKTS-----VPHVVVVASTNRV---DAIDPALRRSGRFDAEVEVTVP  194 (611)
Q Consensus       130 ~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~~-----~~~v~ii~ttn~~---~~l~~~l~~~~Rf~~~i~~~~p  194 (611)
                              ....+...+.+.+++...  ....     .....+|.|||..   +..-+.+.+  |+. .+.|+.|
T Consensus       116 --------~~~~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN~~~~~~~~~~~L~S--Ri~-~f~F~~~  179 (212)
T 1tue_A          116 --------CWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLES--RIT-VFEFPNA  179 (212)
T ss_dssp             --------HHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHT--SCE-EEECCSC
T ss_pred             --------hHHHHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecCCCcccccchhhhhh--hEE-EEEcCCC
Confidence                    111233456677776410  0000     0112467788872   233467877  874 6777644

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.57  E-value=1.8e-07  Score=87.53  Aligned_cols=129  Identities=15%  Similarity=0.254  Sum_probs=76.2

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHH--------hC-CcEEEEcccccccccc----------cchHH--HHHHHHHHHHhh
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRE--------CG-AHLTVISPHSVHKAHV----------GESEK--ALREAFSQASSH  111 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~--------l~-~~~~~v~~~~~~~~~~----------~~~~~--~l~~~f~~~~~~  111 (611)
                      +...|++|+||||||+++...+..        .| .+++..+...+.....          .....  .....++.+ . 
T Consensus         5 ~mi~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~-~-   82 (199)
T 2r2a_A            5 AEICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKSTDEQLSAHDMYEWI-K-   82 (199)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEEEECCTTTCSSCCSSCEEGGGHHHHT-T-
T ss_pred             eeEEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccccchhhhhccccCcccccHHHHHHHh-h-
Confidence            357899999999999999886443        23 5555666554432221          00000  001111111 0 


Q ss_pred             hhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEc
Q 007255          112 ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEV  191 (611)
Q Consensus       112 ~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~  191 (611)
                      ...++++||+|||++.+.+.+....+..     .++..++....   .  .+-+|.++++++.++.+++.  |+...+++
T Consensus        83 ~~~~~~~vliIDEAq~l~~~~~~~~e~~-----rll~~l~~~r~---~--~~~iil~tq~~~~l~~~lr~--ri~~~~~l  150 (199)
T 2r2a_A           83 KPENIGSIVIVDEAQDVWPARSAGSKIP-----ENVQWLNTHRH---Q--GIDIFVLTQGPKLLDQNLRT--LVRKHYHI  150 (199)
T ss_dssp             SGGGTTCEEEETTGGGTSBCCCTTCCCC-----HHHHGGGGTTT---T--TCEEEEEESCGGGBCHHHHT--TEEEEEEE
T ss_pred             ccccCceEEEEEChhhhccCccccchhH-----HHHHHHHhcCc---C--CeEEEEECCCHHHHhHHHHH--HhheEEEE
Confidence            1123578999999999976542222111     23344443221   1  34567777889999999988  99988888


Q ss_pred             cCCC
Q 007255          192 TVPT  195 (611)
Q Consensus       192 ~~p~  195 (611)
                      ..|.
T Consensus       151 ~~~~  154 (199)
T 2r2a_A          151 ASNK  154 (199)
T ss_dssp             EECS
T ss_pred             cCcc
Confidence            8764

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.53  E-value=2.4e-07  Score=87.13  Aligned_cols=71  Identities=23%  Similarity=0.354  Sum_probs=44.8

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccccch-HHHHHHHHHHHHhhhhcCCCeEEEEcccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGES-EKALREAFSQASSHALSGKPSVVFIDEIDAL  128 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~~~~-~~~l~~~f~~~~~~~~~~~~~il~IDeid~l  128 (611)
                      +.+++|+||||||||++++++++.+   +..++.+++..+........ ...+...+....      ++.+|+|||++..
T Consensus        54 ~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~lilDei~~~  127 (202)
T 2w58_A           54 MKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKLDYIK------KVPVLMLDDLGAE  127 (202)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHHHHHHHHHC---CCCHHHHHHHH------HSSEEEEEEECCC
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHHHHHHHHHHhccchHHHHHHHhc------CCCEEEEcCCCCC
Confidence            3799999999999999999999987   56777777665432211100 000112222222      1459999999765


Q ss_pred             C
Q 007255          129 C  129 (611)
Q Consensus       129 ~  129 (611)
                      .
T Consensus       128 ~  128 (202)
T 2w58_A          128 A  128 (202)
T ss_dssp             -
T ss_pred             c
Confidence            3

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.51  E-value=3.3e-08  Score=99.52  Aligned_cols=70  Identities=17%  Similarity=0.171  Sum_probs=46.2

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhC----CcEEeecchhhccccccch-HHHHHHHHHHHHhcCCcEEEEcccccc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAE----ASFFSLSGAELYSMYVGES-EALLRNTFQRARLAAPSIIFFDEADVV  395 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~----~~~~~~~~~~~~~~~~g~~-~~~~~~~~~~a~~~~p~il~iDeid~l  395 (611)
                      ..+++|+||||||||++|.++|.++.    .+++.++.+++........ .......+...  ..+++|+|||++..
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~~l~~~l~~~~~~~~~~~~~~~~--~~~~lLiiDdig~~  226 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAISNGSVKEEIDAV--KNVPVLILDDIGAE  226 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHHHHHHHHHCCCC----CCTTHHH--HTSSEEEEETCCC-
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHHHHHHHHHHHhccchHHHHHHHh--cCCCEEEEcCCCCC
Confidence            57899999999999999999998664    7787788777655332211 11112222222  24569999999654

>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone, chaperone-protein binding complex; HET: DNA; 3.80A {Saccharomyces cerevisiae} PDB: 4a3v_B*

Probab=98.49  E-value=1.9e-07  Score=74.84  Aligned_cols=75  Identities=25%  Similarity=0.398  Sum_probs=65.1

Q ss_pred             CHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhccCC
Q 007255          195 TAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGP  274 (611)
Q Consensus       195 ~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~  274 (611)
                      |.++|.+||+.++++.++..++++..++..|+||+|.||.++|++|...++++..        ..++.+||..+...+.+
T Consensus         2 d~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t~G~SGADl~~l~~eAa~~a~r~~~--------~~i~~~df~~Al~~v~~   73 (88)
T 3vlf_B            2 DLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARR--------KVATEKDFLKAVDKVIS   73 (88)
T ss_dssp             CSSHHHHHHHHHHTTSCBCSCCCHHHHHHTCSSCCHHHHHHHHHHHHHHHHHHSC--------SSBCHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHCCCCCCCccCHHHHHHHcCCCcHHHHHHHHHHHHHHHHHhcc--------ccCCHHHHHHHHHHHhc
Confidence            5678999999999999998899999999999999999999999999999998753        25899999999988776


Q ss_pred             ccc
Q 007255          275 SIT  277 (611)
Q Consensus       275 ~~~  277 (611)
                      ...
T Consensus        74 ~~~   76 (88)
T 3vlf_B           74 GYK   76 (88)
T ss_dssp             ---
T ss_pred             Ccc
Confidence            543

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.48  E-value=1.4e-07  Score=87.24  Aligned_cols=35  Identities=17%  Similarity=0.286  Sum_probs=28.8

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      +.+..+++|||||||||||++|.++|+.+...++.
T Consensus        54 ~iPkkn~ili~GPPGtGKTt~a~ala~~l~g~i~~   88 (212)
T 1tue_A           54 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVIS   88 (212)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECC
T ss_pred             cCCcccEEEEECCCCCCHHHHHHHHHHHhCCCeee
Confidence            34445689999999999999999999998765543

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=98.47  E-value=1.4e-07  Score=97.31  Aligned_cols=165  Identities=19%  Similarity=0.269  Sum_probs=95.8

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCc--EEeecchhhccc-------------cccchHHHHHHHHHHHHhcCCcEEEE
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEAS--FFSLSGAELYSM-------------YVGESEALLRNTFQRARLAAPSIIFF  389 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~--~~~~~~~~~~~~-------------~~g~~~~~~~~~~~~a~~~~p~il~i  389 (611)
                      ..++++|++||||+.+|+++....+..  |+.++++.+...             +.|.... -...|..+   ....||+
T Consensus       153 ~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~~~~lfg~~~g~~tga~~~-~~g~~~~a---~~gtlfl  228 (368)
T 3dzd_A          153 APVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELAESELFGHEKGAFTGALTR-KKGKLELA---DQGTLFL  228 (368)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTHHHHHHEECSCSSSSCCCC-EECHHHHT---TTSEEEE
T ss_pred             hhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHHHHHhcCccccccCCcccc-cCChHhhc---CCCeEEe
Confidence            459999999999999999999887543  999999865432             1111000 01123333   3459999


Q ss_pred             cccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC--C-------CCCeEEEEecCCCc-------ccchhccCCCCcc
Q 007255          390 DEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--Q-------AKGILVLAATNRPH-------AIDAALMRPGRFD  453 (611)
Q Consensus       390 Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--~-------~~~~~vI~~tn~~~-------~ld~al~r~gRf~  453 (611)
                      |||+.+              ....+..|+..|+.-.  .       .-.+.+|+|||..-       .+.+.|..  |+.
T Consensus       229 dei~~l--------------~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~v~~g~fr~dL~~--rl~  292 (368)
T 3dzd_A          229 DEVGEL--------------DQRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISATNKNLEEEIKKGNFREDLYY--RLS  292 (368)
T ss_dssp             ETGGGS--------------CHHHHHHHHHHHHHSEECCBTCCCBEECCCEEEEEESSCHHHHHHTTSSCHHHHH--HHT
T ss_pred             cChhhC--------------CHHHHHHHHHHHHhCCcccCCCCcceeeeeEEEEecCCCHHHHHHcCCccHHHHH--HhC
Confidence            999987              2567788888876321  1       11467888988532       12223333  443


Q ss_pred             -ceeecCCCCH--HHHHHHHHHHhcC----CCCC----CcccHHHHHHhCCCCCHHHHHHHHHHHHH
Q 007255          454 -LVLYVPPPDL--EARHEILRVHTRN----MKVG----DDVDLRSIAEETELFTGAELEGLCREAGI  509 (611)
Q Consensus       454 -~~i~~~~p~~--~~r~~il~~~~~~----~~~~----~~~~~~~la~~~~g~s~~~i~~~~~~a~~  509 (611)
                       ..|.+|+...  ++...+++.++++    +...    ++..++.|.....--+-++++++++.+..
T Consensus       293 ~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpGNvreL~n~i~~~~~  359 (368)
T 3dzd_A          293 VFQIYLPPLRERGKDVILLAEYFLKKFAKEYKKNCFELSEETKEYLMKQEWKGNVRELKNLIERAVI  359 (368)
T ss_dssp             SEEEECCCGGGSTTHHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHTCCCTTHHHHHHHHHHHHHH
T ss_pred             CeEEeCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCcHHHHHHHHHHHHHH
Confidence             2466665544  4555555544432    2211    22335555555422245677777776654

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=98.46  E-value=1.6e-06  Score=88.76  Aligned_cols=174  Identities=13%  Similarity=0.074  Sum_probs=113.3

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh---CC-c--EEeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEccc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EA-S--FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEA  392 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~---~~-~--~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDei  392 (611)
                      .++.+|||||+|.||+..+++++..+   +. +  ++.++         ++  ..++.+...+..    ....|++|||+
T Consensus        17 ~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~---------~~--~~~~~l~~~~~~~plf~~~kvvii~~~   85 (343)
T 1jr3_D           17 LRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSID---------PN--TDWNAIFSLCQAMSLFASRQTLLLLLP   85 (343)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECC---------TT--CCHHHHHHHHHHHHHCCSCEEEEEECC
T ss_pred             CCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEec---------CC--CCHHHHHHHhcCcCCccCCeEEEEECC
Confidence            34679999999999999999998876   22 2  22222         11  123444444432    33569999999


Q ss_pred             cc-ccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCC------cccchhccCCCCccceeecCCCCHHH
Q 007255          393 DV-VGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP------HAIDAALMRPGRFDLVLYVPPPDLEA  465 (611)
Q Consensus       393 d~-l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~------~~ld~al~r~gRf~~~i~~~~p~~~~  465 (611)
                      |. +.              ....+.|++.++  ++++.+++|.+|+.+      ..+-+++.+  |.. ++.|.+++..+
T Consensus        86 ~~kl~--------------~~~~~aLl~~le--~p~~~~~~il~~~~~~~~~~~~k~~~~i~s--r~~-~~~~~~l~~~~  146 (343)
T 1jr3_D           86 ENGPN--------------AAINEQLLTLTG--LLHDDLLLIVRGNKLSKAQENAAWFTALAN--RSV-QVTCQTPEQAQ  146 (343)
T ss_dssp             SSCCC--------------TTHHHHHHHHHT--TCBTTEEEEEEESCCCTTTTTSHHHHHHTT--TCE-EEEECCCCTTH
T ss_pred             CCCCC--------------hHHHHHHHHHHh--cCCCCeEEEEEcCCCChhhHhhHHHHHHHh--Cce-EEEeeCCCHHH
Confidence            87 51              235678888888  455566666666553      346677776  665 78888999999


Q ss_pred             HHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhh
Q 007255          466 RHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDS  532 (611)
Q Consensus       466 r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~  532 (611)
                      ....++..++..++. ++..+..+++.+.| +-+++.+.+.....+.     ....|+.+++...+..
T Consensus       147 l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g-dl~~~~~elekl~l~~-----~~~~It~e~V~~~~~~  208 (343)
T 1jr3_D          147 LPRWVAARAKQLNLELDDAANQVLCYCYEG-NLLALAQALERLSLLW-----PDGKLTLPRVEQAVND  208 (343)
T ss_dssp             HHHHHHHHHHHTTCEECHHHHHHHHHSSTT-CHHHHHHHHHHHHHHC-----TTCEECHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhch-HHHHHHHHHHHHHHhc-----CCCCCCHHHHHHHHhh
Confidence            998888777665544 33457778887766 5666666666554432     1235676666665543

>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B* 2dvw_B*

Probab=98.45  E-value=3.2e-07  Score=72.74  Aligned_cols=75  Identities=27%  Similarity=0.360  Sum_probs=65.5

Q ss_pred             CHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhccCC
Q 007255          195 TAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGP  274 (611)
Q Consensus       195 ~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~~  274 (611)
                      |.++|.+||+.++++.+...++++..++..|+||+|.||.++|++|...++++..        ..++.+||..+...+.|
T Consensus         2 d~~~R~~Il~~~l~~~~~~~~vdl~~la~~t~G~SGADi~~l~~eA~~~a~~~~~--------~~i~~~df~~Al~~~~p   73 (83)
T 3aji_B            2 DRRQKRLIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVRENR--------YIVLAKDFEKAYKTVIK   73 (83)
T ss_dssp             CHHHHHHHHHHHHTTSCBCTTCCTHHHHTSSCCCCHHHHHHHHHHHHHGGGTSCC--------SSBCHHHHHHHHHHHCC
T ss_pred             CHHHHHHHHHHHhCCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhcc--------CCcCHHHHHHHHHHHcc
Confidence            6789999999999999888889999999999999999999999999999887642        46899999999998888


Q ss_pred             ccc
Q 007255          275 SIT  277 (611)
Q Consensus       275 ~~~  277 (611)
                      +..
T Consensus        74 s~~   76 (83)
T 3aji_B           74 KDE   76 (83)
T ss_dssp             ---
T ss_pred             Cch
Confidence            754

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=98.43  E-value=2.8e-07  Score=91.44  Aligned_cols=78  Identities=15%  Similarity=0.138  Sum_probs=47.3

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc--EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEID  126 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~--~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid  126 (611)
                      |+.+...++|+||||||||+++..+|...+..  ++.+...+..+.+....+..+..+++.....     + +|+||+++
T Consensus       119 Gi~~gsviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~-----~-LLVIDsI~  192 (331)
T 2vhj_A          119 HRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQH-----R-VIVIDSLK  192 (331)
T ss_dssp             EEEESEEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHC-----S-EEEEECCT
T ss_pred             CCCCCcEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhC-----C-EEEEeccc
Confidence            44455678999999999999999999875544  4444112222222233344444444444321     3 99999999


Q ss_pred             ccCCCC
Q 007255          127 ALCPRR  132 (611)
Q Consensus       127 ~l~~~~  132 (611)
                      .+....
T Consensus       193 aL~~~~  198 (331)
T 2vhj_A          193 NVIGAA  198 (331)
T ss_dssp             TTC---
T ss_pred             cccccc
Confidence            986543

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.40  E-value=6.4e-07  Score=90.07  Aligned_cols=70  Identities=26%  Similarity=0.386  Sum_probs=43.4

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhC----CcEEEEcccccccccccch-HHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECG----AHLTVISPHSVHKAHVGES-EKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~----~~~~~v~~~~~~~~~~~~~-~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      +.+++|+||||||||++++++++.+.    ..++.+++.++........ ...+...+....      +..+|+|||++.
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~~l~~~l~~~~~~~~~~~~~~~~~------~~~lLiiDdig~  225 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAISNGSVKEEIDAVK------NVPVLILDDIGA  225 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHHHHHHHHHCCCC----CCTTHHHH------TSSEEEEETCCC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHHHHHHHHHHHhccchHHHHHHHhc------CCCEEEEcCCCC
Confidence            57999999999999999999998664    6777777665433211100 001111111111      245999999965


Q ss_pred             c
Q 007255          128 L  128 (611)
Q Consensus       128 l  128 (611)
                      .
T Consensus       226 ~  226 (308)
T 2qgz_A          226 E  226 (308)
T ss_dssp             -
T ss_pred             C
Confidence            4

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=98.37  E-value=1.9e-06  Score=83.54  Aligned_cols=29  Identities=31%  Similarity=0.383  Sum_probs=24.9

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCC
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEA  350 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~  350 (611)
                      ++.++++||||||||||++|.++|+....
T Consensus       102 ~~~n~~~l~GppgtGKt~~a~ala~~~~l  130 (267)
T 1u0j_A          102 GKRNTIWLFGPATTGKTNIAEAIAHTVPF  130 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHSSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHhhhcc
Confidence            34568999999999999999999997643

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=98.26  E-value=4.7e-06  Score=85.24  Aligned_cols=148  Identities=16%  Similarity=0.128  Sum_probs=100.0

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhC---C-cEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECG---A-HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~---~-~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      .+..+||+||+|+||++.++.+++.+.   . ++..+...       +  ...++++.+.+...+..+...|++|||+|.
T Consensus        17 ~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-------~--~~~~~~l~~~~~~~plf~~~kvvii~~~~~   87 (343)
T 1jr3_D           17 LRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSID-------P--NTDWNAIFSLCQAMSLFASRQTLLLLLPEN   87 (343)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECC-------T--TCCHHHHHHHHHHHHHCCSCEEEEEECCSS
T ss_pred             CCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEec-------C--CCCHHHHHHHhcCcCCccCCeEEEEECCCC
Confidence            457899999999999999999988662   1 22222111       1  122456666666666667788999999987


Q ss_pred             -cCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecC------cccccHHhhccCCcceEEEccCCCHHHHH
Q 007255          128 -LCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR------VDAIDPALRRSGRFDAEVEVTVPTAEERF  200 (611)
Q Consensus       128 -l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~------~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~  200 (611)
                       +..          ...+.|+..++..      ++++++|.+++.      ...+.+.+.+  |+ ..+.+.+++..+..
T Consensus        88 kl~~----------~~~~aLl~~le~p------~~~~~~il~~~~~~~~~~~~k~~~~i~s--r~-~~~~~~~l~~~~l~  148 (343)
T 1jr3_D           88 GPNA----------AINEQLLTLTGLL------HDDLLLIVRGNKLSKAQENAAWFTALAN--RS-VQVTCQTPEQAQLP  148 (343)
T ss_dssp             CCCT----------THHHHHHHHHTTC------BTTEEEEEEESCCCTTTTTSHHHHHHTT--TC-EEEEECCCCTTHHH
T ss_pred             CCCh----------HHHHHHHHHHhcC------CCCeEEEEEcCCCChhhHhhHHHHHHHh--Cc-eEEEeeCCCHHHHH
Confidence             643          3467788888752      223444444443      2467788887  76 48899999999999


Q ss_pred             HHHHHhhcCCCCCCc-ccHHHHHHhccC
Q 007255          201 EILKLYTKKVPLDAN-VDLEAIATSCNG  227 (611)
Q Consensus       201 ~Il~~~~~~~~~~~~-~~~~~la~~~~g  227 (611)
                      ..++..+...+..-+ ..+..++..++|
T Consensus       149 ~~l~~~~~~~g~~i~~~a~~~l~~~~~g  176 (343)
T 1jr3_D          149 RWVAARAKQLNLELDDAANQVLCYCYEG  176 (343)
T ss_dssp             HHHHHHHHHTTCEECHHHHHHHHHSSTT
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHhch
Confidence            999988876665433 236666665554

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=98.25  E-value=5.6e-06  Score=80.16  Aligned_cols=121  Identities=17%  Similarity=0.259  Sum_probs=68.2

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCC
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCP  130 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~  130 (611)
                      ++.++++|+||||||||+++.++|+.+.... .++.+.   ...         .+..+      ....|++.||....-.
T Consensus       102 ~~~n~~~l~GppgtGKt~~a~ala~~~~l~G-~vn~~~---~~f---------~l~~~------~~k~i~l~Ee~~~~~d  162 (267)
T 1u0j_A          102 GKRNTIWLFGPATTGKTNIAEAIAHTVPFYG-CVNWTN---ENF---------PFNDC------VDKMVIWWEEGKMTAK  162 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHSSCEE-ECCTTC---SSC---------TTGGG------SSCSEEEECSCCEETT
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHhhhcccc-eeeccc---ccc---------ccccc------cccEEEEeccccchhH
Confidence            3457899999999999999999999865432 223321   000         11111      1234677777754321


Q ss_pred             CCCCCchhhHHHHHHHHHHHhcCC-------CCCCCCCcEEEEEeecC-c----------ccccHHhhccCCcceEEEcc
Q 007255          131 RRDHRREQDVRIASQLFTLMDSNK-------PSKTSVPHVVVVASTNR-V----------DAIDPALRRSGRFDAEVEVT  192 (611)
Q Consensus       131 ~~~~~~~~~~~~~~~ll~~l~~~~-------~~~~~~~~v~ii~ttn~-~----------~~l~~~l~~~~Rf~~~i~~~  192 (611)
                                 ....+..+++...       ..........+|.|||. +          +...+.|++  |+ ..+.|+
T Consensus       163 -----------~~~~lr~i~~G~~~~id~K~k~~~~v~~tPvIitsN~~i~~~~~g~~~s~~~~~~L~s--R~-~~f~F~  228 (267)
T 1u0j_A          163 -----------VVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQD--RM-FKFELT  228 (267)
T ss_dssp             -----------THHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHT--TE-EEEECC
T ss_pred             -----------HHHHHHHHhCCCcEEEecCcCCcccccCCCEEEEecCCcccccccCccchhhhHHHhh--hE-EEEECC
Confidence                       1233444555211       00001123456777776 1          245688888  87 477887


Q ss_pred             --------CCCHHHHHHHHH
Q 007255          193 --------VPTAEERFEILK  204 (611)
Q Consensus       193 --------~p~~~~r~~Il~  204 (611)
                              +.+.++....|+
T Consensus       229 ~~~p~~~~~lt~~~~~~f~~  248 (267)
T 1u0j_A          229 RRLDHDFGKVTKQEVKDFFR  248 (267)
T ss_dssp             SCCCTTSCCCCHHHHHHHHH
T ss_pred             CcCCcccCCCCHHHHHHHHH
Confidence                    566666666665

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=98.20  E-value=8.8e-07  Score=91.07  Aligned_cols=118  Identities=18%  Similarity=0.206  Sum_probs=73.3

Q ss_pred             cCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 007255           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (611)
Q Consensus        48 ~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~  127 (611)
                      ++++++..++|+||||+||||+++.++..++..++.+....-      .....+.          ...+..++++||++.
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~~~~------~~~~~lg----------~~~q~~~~l~dd~~~  227 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLD------RLNFELG----------VAIDQFLVVFEDVKG  227 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTT------THHHHHG----------GGTTCSCEEETTCCC
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEeccch------hHHHHHH----------HhcchhHHHHHHHHH
Confidence            477888899999999999999999999998776554322110      0000011          112345789999998


Q ss_pred             cCC-CCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEc
Q 007255          128 LCP-RRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEV  191 (611)
Q Consensus       128 l~~-~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~  191 (611)
                      +.. .+.............+.+.+++         .+.++.++|+++.+ +++.+++|++..+..
T Consensus       228 ~~~~~r~l~~~~~~~~~~~l~~~ldG---------~v~v~~~tn~~~~l-~alf~pg~ld~~~~~  282 (377)
T 1svm_A          228 TGGESRDLPSGQGINNLDNLRDYLDG---------SVKVNLEKKHLNKR-TQIFPPGIVTMNEYS  282 (377)
T ss_dssp             STTTTTTCCCCSHHHHHHTTHHHHHC---------SSCEEECCSSSCCE-EECCCCEEEEECSCC
T ss_pred             HHHHHhhccccCcchHHHHHHHHhcC---------CCeEeeccCchhhH-HHhhcCcccChhHHh
Confidence            765 2211111111122445556664         24567889999988 677777787655444

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=98.11  E-value=2.4e-05  Score=71.70  Aligned_cols=26  Identities=31%  Similarity=0.443  Sum_probs=22.7

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcE
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASF  352 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~  352 (611)
                      +.|.||+|+||||+++.++..++..+
T Consensus         3 i~l~G~nGsGKTTLl~~l~g~l~i~~   28 (178)
T 1ye8_A            3 IIITGEPGVGKTTLVKKIVERLGKRA   28 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGGE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcC
Confidence            67899999999999999999886443

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=98.00  E-value=1.5e-05  Score=81.16  Aligned_cols=116  Identities=19%  Similarity=0.184  Sum_probs=69.1

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc----------------cccchHHHHHHHHHHHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----------------YVGESEALLRNTFQRAR  380 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~----------------~~g~~~~~~~~~~~~a~  380 (611)
                      |+++..-++++||||+|||+++..+|..+   +..++.++.......                .....+..+..+....+
T Consensus        57 Gi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~  136 (356)
T 3hr8_A           57 GYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGEQALEIVDELVR  136 (356)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchHHHHHcCCchhhhhhhhccCHHHHHHHHHHHhh
Confidence            45566678999999999999999999775   556666665442210                11123333433333444


Q ss_pred             hcCCcEEEEcccccccccC---CCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEe
Q 007255          381 LAAPSIIFFDEADVVGAKR---GGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAA  435 (611)
Q Consensus       381 ~~~p~il~iDeid~l~~~~---~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~  435 (611)
                      ...+++++||.+..+++..   +..+........+.+.+++..|..+....++.||.+
T Consensus       137 ~~~~dlvVIDSi~~l~~~~el~g~~G~~q~~~qar~la~~L~~L~~lak~~~~tVI~i  194 (356)
T 3hr8_A          137 SGVVDLIVVDSVAALVPRAEIEGAMGDMQVGLQARLMSQALRKIAGSVNKSKAVVIFT  194 (356)
T ss_dssp             TSCCSEEEEECTTTCCCHHHHTTCCCSSCSSHHHHHHHHHHHHHHHHHHTSSCEEEEE
T ss_pred             hcCCCeEEehHhhhhcChhhhcccchhhHHHHHHHHHHHHHHHHHHHHHhcCCEEEEE
Confidence            5778999999999887521   111111111234556666666655544455555543

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.96  E-value=0.00011  Score=67.23  Aligned_cols=27  Identities=37%  Similarity=0.748  Sum_probs=23.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHL   81 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~   81 (611)
                      .+.|.||+|+||||+++.++..++..+
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i~~   28 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGKRA   28 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGGGE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcC
Confidence            578999999999999999999886443

>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} PDB: 2dzo_B

Probab=97.96  E-value=2.8e-06  Score=67.04  Aligned_cols=69  Identities=23%  Similarity=0.308  Sum_probs=49.3

Q ss_pred             HHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhccC
Q 007255          197 EERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVG  273 (611)
Q Consensus       197 ~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~i~  273 (611)
                      ++|.+||+.++++.++..++++..++..|+||+|.||.++|++|...++++..        ..++.+||..+...+.
T Consensus         1 ~~R~~Il~~~l~~~~~~~~vdl~~lA~~t~G~SGADi~~l~~eAa~~ai~~~~--------~~i~~~df~~Al~~v~   69 (82)
T 2dzn_B            1 MERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKNR--------YVILQSDLEEAYATQV   69 (82)
T ss_dssp             -------------CEECTTCCSTTTTTSSCCCCHHHHHHHHHHHHHHHHHTTC--------SEECHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHcCCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhcc--------CCcCHHHHHHHHHHHH
Confidence            46889999999988887888999999999999999999999999999988643        3589999999988763

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.83  E-value=3.2e-05  Score=79.20  Aligned_cols=117  Identities=19%  Similarity=0.172  Sum_probs=66.3

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcccc----------------ccchHHHHHHHHHHHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMY----------------VGESEALLRNTFQRAR  380 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~----------------~g~~~~~~~~~~~~a~  380 (611)
                      |+++..-++++||||+|||++|..+|...   +.+++.++...-....                ....+..+..+-...+
T Consensus        70 Gl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~  149 (366)
T 1xp8_A           70 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVR  149 (366)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHh
Confidence            45666678999999999999999988765   5566666554321110                1112333333333334


Q ss_pred             hcCCcEEEEcccccccccCCCCC---CCCcchhHHHHHHHHHHhcCCCCCCCeEEEEec
Q 007255          381 LAAPSIIFFDEADVVGAKRGGSS---STSITVGERLLSTLLTEMDGLEQAKGILVLAAT  436 (611)
Q Consensus       381 ~~~p~il~iDeid~l~~~~~~~~---~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~t  436 (611)
                      ...+++|+||.+..+.+.....+   +.......+.+.+++..|..+....++.||++.
T Consensus       150 ~~~~~lVVIDsl~~l~~~~e~~g~~gd~~~~~~~r~~~~~lr~L~~~a~~~~~~VI~~n  208 (366)
T 1xp8_A          150 SGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTAILSKTGTAAIFIN  208 (366)
T ss_dssp             TTCCSEEEEECTTTCCCSTTC--------CCHHHHHHHHHHHHHHHHHTTTCCEEEEEE
T ss_pred             cCCCCEEEEeChHHhccccccccccccchhhHHHHHHHHHHHHHHHHHHHcCCEEEEEE
Confidence            46788999999999875321111   000011224455666666544444556666553

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=97.75  E-value=2e-05  Score=80.31  Aligned_cols=78  Identities=23%  Similarity=0.187  Sum_probs=50.0

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc----ccc------------chHHHHHHHHHHHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----YVG------------ESEALLRNTFQRAR  380 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~----~~g------------~~~~~~~~~~~~a~  380 (611)
                      |+++..-++++||||+|||++|..+|...   +..+..++...-...    ..|            ..+..+..+...++
T Consensus        57 Gl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~  136 (349)
T 2zr9_A           57 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVR  136 (349)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHh
Confidence            55666678999999999999999998664   455555554332111    001            12333333333344


Q ss_pred             hcCCcEEEEcccccccc
Q 007255          381 LAAPSIIFFDEADVVGA  397 (611)
Q Consensus       381 ~~~p~il~iDeid~l~~  397 (611)
                      ...|++|+||++..+..
T Consensus       137 ~~~~~lIVIDsl~~l~~  153 (349)
T 2zr9_A          137 SGALDIIVIDSVAALVP  153 (349)
T ss_dssp             TTCCSEEEEECGGGCCC
T ss_pred             cCCCCEEEEcChHhhcc
Confidence            56789999999999874

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.70  E-value=4.7e-05  Score=72.71  Aligned_cols=77  Identities=17%  Similarity=0.176  Sum_probs=47.9

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchh----hccc----------c------------------
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAE----LYSM----------Y------------------  364 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~----~~~~----------~------------------  364 (611)
                      |+++...++|+||+|+|||++++.++...   +..++.++...    +...          +                  
T Consensus        19 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (235)
T 2w0m_A           19 GIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTTEESRDSIIRQAKQFNWDFEEYIEKKLIIIDALMKEKEDQ   98 (235)
T ss_dssp             SEETTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEESSSCHHHHHHHHHHTTCCCGGGBTTTEEEEECCC----CT
T ss_pred             CCcCCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEEcccCHHHHHHHHHHhcchHHHHhhCCEEEEeccccccCce
Confidence            34555668899999999999999999654   34444333211    1000          0                  


Q ss_pred             ----ccchHHHHHHHHHHHHhcCCc--EEEEccccccc
Q 007255          365 ----VGESEALLRNTFQRARLAAPS--IIFFDEADVVG  396 (611)
Q Consensus       365 ----~g~~~~~~~~~~~~a~~~~p~--il~iDeid~l~  396 (611)
                          ..........+...+....|.  +|++||...+.
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~  136 (235)
T 2w0m_A           99 WSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALF  136 (235)
T ss_dssp             TBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGS
T ss_pred             eeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhh
Confidence                001233344455555567899  99999998774

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=97.68  E-value=4.1e-05  Score=78.12  Aligned_cols=78  Identities=19%  Similarity=0.170  Sum_probs=50.4

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc-----c----------ccchHHHHHHHHH-HHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM-----Y----------VGESEALLRNTFQ-RAR  380 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~-----~----------~g~~~~~~~~~~~-~a~  380 (611)
                      |+++..-++++||||+|||++|..+|...   +.+++.++...-...     +          .......+..++. .++
T Consensus        59 Gl~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~  138 (356)
T 1u94_A           59 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR  138 (356)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHh
Confidence            46666778999999999999999998765   556666665322110     0          0011122223332 334


Q ss_pred             hcCCcEEEEcccccccc
Q 007255          381 LAAPSIIFFDEADVVGA  397 (611)
Q Consensus       381 ~~~p~il~iDeid~l~~  397 (611)
                      ...+++|+||.+..+..
T Consensus       139 ~~~~~lVVIDsl~~l~~  155 (356)
T 1u94_A          139 SGAVDVIVVDSVAALTP  155 (356)
T ss_dssp             HTCCSEEEEECGGGCCC
T ss_pred             ccCCCEEEEcCHHHhcc
Confidence            56788999999999874

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.68  E-value=0.00075  Score=74.16  Aligned_cols=173  Identities=15%  Similarity=0.166  Sum_probs=93.8

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHH-------hCCcEEEEcccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRE-------CGAHLTVISPHS   88 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~-------l~~~~~~v~~~~   88 (611)
                      .....++|.+..++.|.+.+...           ......++++||+|+|||++++.+++.       .....+.++.+.
T Consensus       121 ~~~~~~vGR~~~l~~L~~~L~~~-----------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~  189 (591)
T 1z6t_A          121 QRPVVFVTRKKLVNAIQQKLSKL-----------KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGK  189 (591)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHTTS-----------TTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEES
T ss_pred             CCCCeecccHHHHHHHHHHHhcc-----------cCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCC
Confidence            44567999999999999887431           123467999999999999999998642       212233333221


Q ss_pred             cccc---------------------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHH
Q 007255           89 VHKA---------------------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLF  147 (611)
Q Consensus        89 ~~~~---------------------~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll  147 (611)
                      ....                     ........+...+......  ..++.+|+|||++..            .   .  
T Consensus       190 ~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~--~~~~~LLVLDdv~~~------------~---~--  250 (591)
T 1z6t_A          190 QDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLR--KHPRSLLILDDVWDS------------W---V--  250 (591)
T ss_dssp             CCHHHHHHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHH--TCTTCEEEEEEECCH------------H---H--
T ss_pred             CchHHHHHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHcc--CCCCeEEEEeCCCCH------------H---H--
Confidence            1000                     0001111122222211111  125789999999642            1   1  


Q ss_pred             HHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEE-ccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhcc
Q 007255          148 TLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVE-VTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCN  226 (611)
Q Consensus       148 ~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~-~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~  226 (611)
                        ++...      ++..||.||...... ....  +.. ..+. ..+.+.++-.+++.................++..|.
T Consensus       251 --l~~l~------~~~~ilvTsR~~~~~-~~~~--~~~-~~v~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~i~~~~~  318 (591)
T 1z6t_A          251 --LKAFD------SQCQILLTTRDKSVT-DSVM--GPK-YVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECK  318 (591)
T ss_dssp             --HHTTC------SSCEEEEEESCGGGG-TTCC--SCE-EEEECCSSCCHHHHHHHHHHHHTSCGGGSCTHHHHHHHHHT
T ss_pred             --HHHhc------CCCeEEEECCCcHHH-HhcC--CCc-eEeecCCCCCHHHHHHHHHHHhCCCcccccHHHHHHHHHhC
Confidence              11111      134566676653311 1111  111 1222 246899999999988775422222335788888898


Q ss_pred             CCcc
Q 007255          227 GYVG  230 (611)
Q Consensus       227 g~~~  230 (611)
                      |..-
T Consensus       319 G~PL  322 (591)
T 1z6t_A          319 GSPL  322 (591)
T ss_dssp             TCHH
T ss_pred             CCcH
Confidence            8743

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=97.65  E-value=4.6e-05  Score=81.05  Aligned_cols=59  Identities=22%  Similarity=0.335  Sum_probs=35.6

Q ss_pred             ccccccccCCCccccccc-chhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          276 ITRGVTVEIPKVTWEDIG-GLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       276 ~~~~~~~~~~~~~~~~i~-g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .+..+.....+.+|+++- +|..+...+...+..              ....+++.||||||||+++.+++..+
T Consensus        10 ~~~~~~~~~~p~~~~~Ln~~Q~~av~~~~~~i~~--------------~~~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           10 HSSGLVPRGSHMTFDDLTEGQKNAFNIVMKAIKE--------------KKHHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             -----------CCSSCCCHHHHHHHHHHHHHHHS--------------SSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccCCCccccCCCccccCCHHHHHHHHHHHHHHhc--------------CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            334455556677888875 556665555555442              12379999999999999999999877

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.60  E-value=0.0017  Score=71.30  Aligned_cols=177  Identities=16%  Similarity=0.056  Sum_probs=95.7

Q ss_pred             cccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHH-------hCCcEEeecchhh-
Q 007255          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHA-------AEASFFSLSGAEL-  360 (611)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~-------~~~~~~~~~~~~~-  360 (611)
                      ...++|.+...+.|.+.+...           ....+-++++||+|+|||++|..+++.       ....++.++.+.. 
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~-----------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~  191 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKL-----------KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQD  191 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTS-----------TTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCC
T ss_pred             CCeecccHHHHHHHHHHHhcc-----------cCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCc
Confidence            456889999999998887631           122346889999999999999998642       1122333332211 


Q ss_pred             ----cccc----------------ccch-HHHHHHHHHHHHh-cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHH
Q 007255          361 ----YSMY----------------VGES-EALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (611)
Q Consensus       361 ----~~~~----------------~g~~-~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll  418 (611)
                          ....                .... +.....+...... ..|.+|++|+++..                    ..+
T Consensus       192 ~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~--------------------~~l  251 (591)
T 1z6t_A          192 KSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS--------------------WVL  251 (591)
T ss_dssp             HHHHHHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCH--------------------HHH
T ss_pred             hHHHHHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCH--------------------HHH
Confidence                1000                0011 1222222222222 26889999999642                    112


Q ss_pred             HHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHH
Q 007255          419 TEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGA  498 (611)
Q Consensus       419 ~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~  498 (611)
                      ..+     ..+..||.||..+.....  .. +..-.+...+..+.++-.+++......-..........+++.+.|. +-
T Consensus       252 ~~l-----~~~~~ilvTsR~~~~~~~--~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~i~~~~~G~-PL  322 (591)
T 1z6t_A          252 KAF-----DSQCQILLTTRDKSVTDS--VM-GPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGS-PL  322 (591)
T ss_dssp             HTT-----CSSCEEEEEESCGGGGTT--CC-SCEEEEECCSSCCHHHHHHHHHHHHTSCGGGSCTHHHHHHHHHTTC-HH
T ss_pred             HHh-----cCCCeEEEECCCcHHHHh--cC-CCceEeecCCCCCHHHHHHHHHHHhCCCcccccHHHHHHHHHhCCC-cH
Confidence            222     234566667765543211  11 1111111124678888888888766432111234568899999985 55


Q ss_pred             HHHHHHH
Q 007255          499 ELEGLCR  505 (611)
Q Consensus       499 ~i~~~~~  505 (611)
                      .|+.+..
T Consensus       323 al~~~a~  329 (591)
T 1z6t_A          323 VVSLIGA  329 (591)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5554443

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.59  E-value=0.00011  Score=69.45  Aligned_cols=39  Identities=23%  Similarity=0.213  Sum_probs=30.9

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecch
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~  358 (611)
                      |+++..-++++||||+|||+++..+|...+..++.++..
T Consensus        16 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~~   54 (220)
T 2cvh_A           16 GFAPGVLTQVYGPYASGKTTLALQTGLLSGKKVAYVDTE   54 (220)
T ss_dssp             SBCTTSEEEEECSTTSSHHHHHHHHHHHHCSEEEEEESS
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHHcCCcEEEEECC
Confidence            456666789999999999999999998556666666544

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=97.55  E-value=0.00012  Score=72.35  Aligned_cols=114  Identities=14%  Similarity=0.171  Sum_probs=61.5

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecchhhccc----------------cccchHHHHHHHHHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSM----------------YVGESEALLRNTFQR  378 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~~~~~~~----------------~~g~~~~~~~~~~~~  378 (611)
                      |+++. -++++||||+|||+|+..++...     +..++.++..+-...                .....+...-.+.+.
T Consensus        25 Gl~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~ra~~lGvd~d~llv~~~~~~E~~~l~i~~~  103 (333)
T 3io5_A           25 GMQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAYLRSMGVDPERVIHTPVQSLEQLRIDMVNQ  103 (333)
T ss_dssp             CBCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHHHHHTTCCGGGEEEEECSBHHHHHHHHHHH
T ss_pred             CCcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHHHHHhCCCHHHeEEEcCCCHHHHHHHHHHH
Confidence            45555 57899999999999988776554     556667766432211                011122220122222


Q ss_pred             ---HHhcCCcEEEEcccccccccCCCCCC---CCc--chhHHHHHHHHHHhcCCCCCCCeEEEE
Q 007255          379 ---ARLAAPSIIFFDEADVVGAKRGGSSS---TSI--TVGERLLSTLLTEMDGLEQAKGILVLA  434 (611)
Q Consensus       379 ---a~~~~p~il~iDeid~l~~~~~~~~~---~~~--~~~~~~~~~ll~~l~~~~~~~~~~vI~  434 (611)
                         ++...|++|+||-+..+++...-.+.   ...  ....|..++.|..|-.+....++.+|.
T Consensus       104 l~~i~~~~~~lvVIDSI~aL~~~~eieg~~gd~~~gsv~qaR~~s~~LrkL~~~ak~~~i~vi~  167 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGNLASKKETEDALNEKVVSDMTRAKTMKSLFRIVTPYFSTKNIPCIA  167 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTTCBCC--------------CTHHHHHHHHHHHHHHHHHHTTCEEEE
T ss_pred             HHHhhccCceEEEEecccccccchhccCccccccccHHHHHHHHHHHHHHHHHHHHHhCCEEEE
Confidence               24567999999999999854211111   000  123455566555544333445555553

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=97.52  E-value=0.00011  Score=70.83  Aligned_cols=78  Identities=15%  Similarity=0.140  Sum_probs=49.4

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHH--h-------CCcEEeecchhh------cc---c-------------c-cc-
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHA--A-------EASFFSLSGAEL------YS---M-------------Y-VG-  366 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~--~-------~~~~~~~~~~~~------~~---~-------------~-~g-  366 (611)
                      |+++..-++|+||||+|||+++..+|..  .       +...+.++..+.      ..   .             + .. 
T Consensus        20 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~   99 (243)
T 1n0w_A           20 GIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAF   99 (243)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECC
T ss_pred             CCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHHHHHHHcCCCHHHHhhCeEEEecC
Confidence            4556667899999999999999999985  2       345666654431      00   0             0 00 


Q ss_pred             chHH---HHHHHHHHHHhcCCcEEEEcccccccc
Q 007255          367 ESEA---LLRNTFQRARLAAPSIIFFDEADVVGA  397 (611)
Q Consensus       367 ~~~~---~~~~~~~~a~~~~p~il~iDeid~l~~  397 (611)
                      ..+.   .+..+...+....|.+|+|||+..+..
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~lliiD~~~~~~~  133 (243)
T 1n0w_A          100 NTDHQTQLLYQASAMMVESRYALLIVDSATALYR  133 (243)
T ss_dssp             SHHHHHHHHHHHHHHHHHSCEEEEEEETSSGGGC
T ss_pred             CHHHHHHHHHHHHHHHhcCCceEEEEeCchHHHH
Confidence            0111   223344445556789999999998763

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.49  E-value=0.00048  Score=64.97  Aligned_cols=40  Identities=23%  Similarity=0.292  Sum_probs=32.8

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~   88 (611)
                      |+.+..-++|+||||+|||+++..++...+...+.++...
T Consensus        16 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~~~   55 (220)
T 2cvh_A           16 GFAPGVLTQVYGPYASGKTTLALQTGLLSGKKVAYVDTEG   55 (220)
T ss_dssp             SBCTTSEEEEECSTTSSHHHHHHHHHHHHCSEEEEEESSC
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHHcCCcEEEEECCC
Confidence            5667788999999999999999999885566777776543

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=97.47  E-value=7.2e-05  Score=75.62  Aligned_cols=116  Identities=14%  Similarity=0.168  Sum_probs=65.1

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---------CCcEEeecchhhc---------ccc-------------c--c
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---------EASFFSLSGAELY---------SMY-------------V--G  366 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---------~~~~~~~~~~~~~---------~~~-------------~--g  366 (611)
                      |+++..-++++||||+|||++|..+|...         +...++++...-.         ..+             .  .
T Consensus       103 Gl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~~~~~g~~~~~~~~~l~~~~~~  182 (324)
T 2z43_A          103 GIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYIRAI  182 (324)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECC
T ss_pred             CCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHHhCCCHHHHhccEEEEeCC
Confidence            55666678999999999999999999875         4556666554320         000             0  0


Q ss_pred             chH---HHHHHHHHHHHh-cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEec
Q 007255          367 ESE---ALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAAT  436 (611)
Q Consensus       367 ~~~---~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~t  436 (611)
                      ..+   ..+..+...++. ..+.+|+||.+..++..... +.+........+.+++..|..+....++.||++.
T Consensus       183 ~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l~~~~~~-~~g~~~~r~~~~~~~l~~L~~la~~~~~~Vi~~n  255 (324)
T 2z43_A          183 NTDHQIAIVDDLQELVSKDPSIKLIVVDSVTSHFRAEYP-GRENLAVRQQKLNKHLHQLTRLAEVYDIAVIITN  255 (324)
T ss_dssp             SHHHHHHHHHHHHHHHHHCTTEEEEEETTTTHHHHHHSC-TTTSHHHHHHHHHHHHHHHHHHHHHHTCEEEEEE
T ss_pred             CHHHHHHHHHHHHHHHHhccCCCEEEEeCcHHHhhhhhc-CcccHHHHHHHHHHHHHHHHHHHHHhCCEEEEEc
Confidence            112   123344445555 67889999999988743111 0011111112345555555443333455566543

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.43  E-value=0.00021  Score=65.13  Aligned_cols=35  Identities=11%  Similarity=0.265  Sum_probs=30.2

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecchh
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE  359 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~  359 (611)
                      ..++|+|+||+|||++++++|..++.+++.++...
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~~~~~~~~~D~   38 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDS   38 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCeEEeccch
Confidence            45889999999999999999999998888766543

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=97.42  E-value=0.00013  Score=74.39  Aligned_cols=117  Identities=13%  Similarity=0.156  Sum_probs=64.0

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---------CCcEEeecchhhcc---------cc---------------cc
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---------EASFFSLSGAELYS---------MY---------------VG  366 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---------~~~~~~~~~~~~~~---------~~---------------~g  366 (611)
                      |+++..-++++||||+|||++|..+|...         +...++++......         .+               ..
T Consensus       118 Gl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~~~~~~g~~~~~~l~~l~~~~~~  197 (343)
T 1v5w_A          118 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAY  197 (343)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECC
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHHcCCCHHHHHhceeEeecC
Confidence            55666678999999999999999999863         44566665543210         00               00


Q ss_pred             chH---HHHHHHHHHHHh--cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecC
Q 007255          367 ESE---ALLRNTFQRARL--AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATN  437 (611)
Q Consensus       367 ~~~---~~~~~~~~~a~~--~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn  437 (611)
                      ..+   ..+..+...++.  ..+.+|+||.+..++...-. +.+........+..++..|..+....++.||.++.
T Consensus       198 ~~e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~l~~~~~~-~~g~~~~r~~~l~~~l~~L~~la~~~~~~Vi~~nq  272 (343)
T 1v5w_A          198 TSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFS-GRGELAERQQKLAQMLSRLQKISEEYNVAVFVTNQ  272 (343)
T ss_dssp             STTHHHHHHHHHHHHHHHSCSSEEEEEEETSGGGHHHHCC-GGGCHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEC
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCccEEEEechHHHHHHHhc-ccccHHHHHHHHHHHHHHHHHHHHHhCCEEEEEee
Confidence            011   222333444555  67889999999988743110 00011111123455554444433444556665443

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=97.42  E-value=0.00036  Score=66.96  Aligned_cols=40  Identities=18%  Similarity=0.219  Sum_probs=31.4

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHH--h-------CCcEEEEcccc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE--C-------GAHLTVISPHS   88 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~--l-------~~~~~~v~~~~   88 (611)
                      |+.+...++|+||||+|||++++.++..  +       +...+.++...
T Consensus        20 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~   68 (243)
T 1n0w_A           20 GIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEG   68 (243)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             CCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCC
Confidence            5667788999999999999999999985  3       34566666543

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=97.42  E-value=0.00064  Score=81.47  Aligned_cols=172  Identities=16%  Similarity=0.182  Sum_probs=98.0

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh-------CCcEEEEcccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-------GAHLTVISPHS   88 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l-------~~~~~~v~~~~   88 (611)
                      .....++|.++.++.|.+.+...           -...+-+.|+|+.|+|||+||+.+++..       ...++.++.+.
T Consensus       121 ~~~~~~vgR~~~~~~l~~~l~~~-----------~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~  189 (1249)
T 3sfz_A          121 QRPVIFVTRKKLVHAIQQKLWKL-----------NGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGK  189 (1249)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHTT-----------TTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCS
T ss_pred             CCCceeccHHHHHHHHHHHHhhc-----------cCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECC
Confidence            44567999999999999987431           1234678999999999999999887652       12233343332


Q ss_pred             cccc---------------------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHH
Q 007255           89 VHKA---------------------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLF  147 (611)
Q Consensus        89 ~~~~---------------------~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll  147 (611)
                      ....                     ........+...+.....  ...++.+|++||++..               ..  
T Consensus       190 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~~~LlvlDd~~~~---------------~~--  250 (1249)
T 3sfz_A          190 QDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLML--RKHPRSLLILDDVWDP---------------WV--  250 (1249)
T ss_dssp             CCHHHHHHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTS--SSSCSCEEEEESCCCH---------------HH--
T ss_pred             cCchHHHHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHh--ccCCCEEEEEecCCCH---------------HH--
Confidence            1000                     000111122222221110  0134789999999742               11  


Q ss_pred             HHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccC-CCHHHHHHHHHHhhcCCCCCCcccHHHHHHhcc
Q 007255          148 TLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV-PTAEERFEILKLYTKKVPLDANVDLEAIATSCN  226 (611)
Q Consensus       148 ~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~-p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~  226 (611)
                        ++...      +...||.||....-.. ...   .....+.+++ ++.++-.++|..+..............+++.|.
T Consensus       251 --~~~~~------~~~~ilvTtR~~~~~~-~~~---~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~~~~~~~~i~~~~~  318 (1249)
T 3sfz_A          251 --LKAFD------NQCQILLTTRDKSVTD-SVM---GPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKECK  318 (1249)
T ss_dssp             --HTTTC------SSCEEEEEESSTTTTT-TCC---SCBCCEECCSSCCHHHHHHHHHHHHTSCSTTCCTHHHHHHHHTT
T ss_pred             --HHhhc------CCCEEEEEcCCHHHHH-hhc---CCceEEEecCCCCHHHHHHHHHHhhCCChhhCcHHHHHHHHHhC
Confidence              12111      1235666776543221 111   1224567775 899999999988775443333344788889998


Q ss_pred             CCc
Q 007255          227 GYV  229 (611)
Q Consensus       227 g~~  229 (611)
                      |..
T Consensus       319 glP  321 (1249)
T 3sfz_A          319 GSP  321 (1249)
T ss_dssp             TCH
T ss_pred             CCH
Confidence            864

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.39  E-value=9.1e-05  Score=67.58  Aligned_cols=35  Identities=20%  Similarity=0.298  Sum_probs=30.6

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~   87 (611)
                      +..|+|+|+||+||||+++.+++.++..++.++..
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l~~~~~~~~~D   37 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVD   37 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCCeEEeccc
Confidence            35799999999999999999999999888776644

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=97.36  E-value=0.0024  Score=68.41  Aligned_cols=74  Identities=14%  Similarity=0.245  Sum_probs=51.6

Q ss_pred             eEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc--cccHHhhccCCcceEEEccCCC
Q 007255          118 SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD--AIDPALRRSGRFDAEVEVTVPT  195 (611)
Q Consensus       118 ~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~--~l~~~l~~~~Rf~~~i~~~~p~  195 (611)
                      .+|+|||++.++...      ...+...+..+.......     .+.+|.+|.++.  .++..++.  .|...|.+...+
T Consensus       345 ivvVIDE~~~L~~~~------~~~~~~~L~~Iar~GRa~-----GIhLIlaTQRPs~d~I~~~Ira--n~~~RI~lrv~s  411 (574)
T 2iut_A          345 IVVVVDEFADMMMIV------GKKVEELIARIAQKARAA-----GIHLILATQRPSVDVITGLIKA--NIPTRIAFQVSS  411 (574)
T ss_dssp             EEEEESCCTTHHHHT------CHHHHHHHHHHHHHCTTT-----TEEEEEEESCCCTTTSCHHHHH--TCCEEEEECCSC
T ss_pred             EEEEEeCHHHHhhhh------hHHHHHHHHHHHHHHhhC-----CeEEEEEecCcccccccHHHHh--hhccEEEEEcCC
Confidence            689999998776421      123344444555444322     366777777766  78899988  788889999999


Q ss_pred             HHHHHHHHH
Q 007255          196 AEERFEILK  204 (611)
Q Consensus       196 ~~~r~~Il~  204 (611)
                      ..+...|+.
T Consensus       412 ~~Dsr~ILd  420 (574)
T 2iut_A          412 KIDSRTILD  420 (574)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHhcC
Confidence            988888774

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.35  E-value=0.00021  Score=65.78  Aligned_cols=31  Identities=23%  Similarity=0.295  Sum_probs=22.7

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVREC---GAHLTVI   84 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v   84 (611)
                      .-++++||+|+||||++..++..+   +...+.+
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~   37 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVF   37 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            467899999999999986666543   4444443

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=97.35  E-value=0.0038  Score=67.85  Aligned_cols=166  Identities=16%  Similarity=0.154  Sum_probs=90.3

Q ss_pred             CCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHH----HhCCc---EEEEccccccc---
Q 007255           22 GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVR----ECGAH---LTVISPHSVHK---   91 (611)
Q Consensus        22 ~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~----~l~~~---~~~v~~~~~~~---   91 (611)
                      +|.+..++.|.+.+...          +......+.++|+.|+|||++|+.+++    .....   .+.++.+....   
T Consensus       131 ~GR~~~~~~l~~~L~~~----------~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~  200 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEM----------CDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKST  200 (549)
T ss_dssp             CCCHHHHHHHHHHHHHH----------TTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHH
T ss_pred             CCchHHHHHHHHHHhcc----------cCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCH
Confidence            59999999999988431          112346889999999999999999997    33221   12223222100   


Q ss_pred             -------------c----ccc----chHHHHHHHHHHHHhhhhcCC-CeEEEEccccccCCCCCCCchhhHHHHHHHHHH
Q 007255           92 -------------A----HVG----ESEKALREAFSQASSHALSGK-PSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (611)
Q Consensus        92 -------------~----~~~----~~~~~l~~~f~~~~~~~~~~~-~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~  149 (611)
                                   .    ...    .....+...+...    ..++ +.+|++||++...           .+  .|...
T Consensus       201 ~~~~~~il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~----L~~~kr~LlVLDdv~~~~-----------~~--~~~~~  263 (549)
T 2a5y_B          201 FDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNA----LIDRPNTLFVFDDVVQEE-----------TI--RWAQE  263 (549)
T ss_dssp             HHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHH----HTTSTTEEEEEEEECCHH-----------HH--HHHHH
T ss_pred             HHHHHHHHHHHhcCcccccccccccccHHHHHHHHHHH----HcCCCcEEEEEECCCCch-----------hh--ccccc
Confidence                         0    000    0001111111111    1333 7899999997531           11  12111


Q ss_pred             HhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc--ccHHHHHHhccC
Q 007255          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN--VDLEAIATSCNG  227 (611)
Q Consensus       150 l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~--~~~~~la~~~~g  227 (611)
                                 ....||.||.... +.....   .....+.+++.+.++-.++|............  .....+++.|.|
T Consensus       264 -----------~gs~ilvTTR~~~-v~~~~~---~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~G  328 (549)
T 2a5y_B          264 -----------LRLRCLVTTRDVE-ISNAAS---QTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSG  328 (549)
T ss_dssp             -----------TTCEEEEEESBGG-GGGGCC---SCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTT
T ss_pred             -----------CCCEEEEEcCCHH-HHHHcC---CCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCC
Confidence                       1235666666432 211111   12346899999999999999987533221111  125667777777


Q ss_pred             Cc
Q 007255          228 YV  229 (611)
Q Consensus       228 ~~  229 (611)
                      ..
T Consensus       329 lP  330 (549)
T 2a5y_B          329 NP  330 (549)
T ss_dssp             CH
T ss_pred             Ch
Confidence            63

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.33  E-value=5e-05  Score=70.00  Aligned_cols=30  Identities=17%  Similarity=0.079  Sum_probs=22.0

Q ss_pred             CcceeCCCCCChHHHHHHHHHHh---CCcEEee
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAA---EASFFSL  355 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~  355 (611)
                      -.+++||+|+|||+++..++..+   +..++.+
T Consensus         5 i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~   37 (184)
T 2orw_A            5 LTVITGPMYSGKTTELLSFVEIYKLGKKKVAVF   37 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            46899999999999997666543   5554443

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.32  E-value=0.00097  Score=63.37  Aligned_cols=37  Identities=27%  Similarity=0.357  Sum_probs=28.7

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVIS   85 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~   85 (611)
                      |+.+...++|+||+|+|||++++.++..+   +..++.++
T Consensus        19 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~   58 (235)
T 2w0m_A           19 GIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVT   58 (235)
T ss_dssp             SEETTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             CCcCCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            45566789999999999999999998654   44555554

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.30  E-value=0.001  Score=62.87  Aligned_cols=76  Identities=20%  Similarity=0.240  Sum_probs=44.7

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccc-------cccccccch-----HHHHHHHHHHHHhhhhcCCC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHS-------VHKAHVGES-----EKALREAFSQASSHALSGKP  117 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~-------~~~~~~~~~-----~~~l~~~f~~~~~~~~~~~~  117 (611)
                      ..-++++||+|+||||++..++..+   +...+.++...       +.+. .|..     .....++++.+.......++
T Consensus        12 G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~sr-lG~~~~~~~~~~~~~i~~~i~~~~~~~~~   90 (223)
T 2b8t_A           12 GWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSR-TGTSLPSVEVESAPEILNYIMSNSFNDET   90 (223)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCC-CCCSSCCEEESSTHHHHHHHHSTTSCTTC
T ss_pred             cEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHh-cCCCccccccCCHHHHHHHHHHHhhCCCC
Confidence            3567889999999999998887766   45555553221       1111 1110     01123445444433333457


Q ss_pred             eEEEEccccccC
Q 007255          118 SVVFIDEIDALC  129 (611)
Q Consensus       118 ~il~IDeid~l~  129 (611)
                      .+|+|||+..+.
T Consensus        91 dvViIDEaQ~l~  102 (223)
T 2b8t_A           91 KVIGIDEVQFFD  102 (223)
T ss_dssp             CEEEECSGGGSC
T ss_pred             CEEEEecCccCc
Confidence            899999998653

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.29  E-value=0.00015  Score=67.55  Aligned_cols=34  Identities=26%  Similarity=0.314  Sum_probs=29.3

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      .+...|+|+||||+||||+++.+++.++..++..
T Consensus        23 ~~~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~   56 (199)
T 3vaa_A           23 NAMVRIFLTGYMGAGKTTLGKAFARKLNVPFIDL   56 (199)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            4557899999999999999999999999887643

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=97.29  E-value=0.00059  Score=69.33  Aligned_cols=82  Identities=22%  Similarity=0.354  Sum_probs=49.9

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccccc----cc--------chHHHHHHHHHHHHhhhh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH----VG--------ESEKALREAFSQASSHAL  113 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~----~~--------~~~~~l~~~f~~~~~~~~  113 (611)
                      |+.+..-++|+||||+|||+++..++..+   +..+++++........    .+        ........++..+.....
T Consensus        57 Gi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~  136 (356)
T 3hr8_A           57 GYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGEQALEIVDELVR  136 (356)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchHHHHHcCCchhhhhhhhccCHHHHHHHHHHHhh
Confidence            46667789999999999999999998764   5566677655322100    00        000011222222222222


Q ss_pred             cCCCeEEEEccccccCC
Q 007255          114 SGKPSVVFIDEIDALCP  130 (611)
Q Consensus       114 ~~~~~il~IDeid~l~~  130 (611)
                      ...+.+++||.+..+.+
T Consensus       137 ~~~~dlvVIDSi~~l~~  153 (356)
T 3hr8_A          137 SGVVDLIVVDSVAALVP  153 (356)
T ss_dssp             TSCCSEEEEECTTTCCC
T ss_pred             hcCCCeEEehHhhhhcC
Confidence            34578999999988876

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.29  E-value=0.00021  Score=66.00  Aligned_cols=34  Identities=29%  Similarity=0.428  Sum_probs=29.4

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ...+..|+|.|+||+||||+++.+++.++..++.
T Consensus         2 ~~~~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~   35 (193)
T 2rhm_A            2 MQTPALIIVTGHPATGKTTLSQALATGLRLPLLS   35 (193)
T ss_dssp             CSCCEEEEEEESTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEec
Confidence            4456789999999999999999999999877554

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=97.27  E-value=0.0029  Score=75.80  Aligned_cols=175  Identities=16%  Similarity=0.058  Sum_probs=98.2

Q ss_pred             cccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-------CCcEEeecchhh-
Q 007255          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-------EASFFSLSGAEL-  360 (611)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-------~~~~~~~~~~~~-  360 (611)
                      ...++|.+...+.|.+.+...           -...+-+.++|++|+|||+||+.+++..       ...++.++.+.. 
T Consensus       123 ~~~~vgR~~~~~~l~~~l~~~-----------~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~  191 (1249)
T 3sfz_A          123 PVIFVTRKKLVHAIQQKLWKL-----------NGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQD  191 (1249)
T ss_dssp             CSSCCCCHHHHHHHHHHHHTT-----------TTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCC
T ss_pred             CceeccHHHHHHHHHHHHhhc-----------cCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcC
Confidence            456889999999998887531           1223457899999999999999988652       122223332210 


Q ss_pred             ----c-------cc---------cccchHHHHHHHHHHHHh--cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHH
Q 007255          361 ----Y-------SM---------YVGESEALLRNTFQRARL--AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (611)
Q Consensus       361 ----~-------~~---------~~g~~~~~~~~~~~~a~~--~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll  418 (611)
                          .       ..         ........+...+...-.  ..+.+|++|+++..                   .   
T Consensus       192 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~-------------------~---  249 (1249)
T 3sfz_A          192 KSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP-------------------W---  249 (1249)
T ss_dssp             HHHHHHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCH-------------------H---
T ss_pred             chHHHHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCH-------------------H---
Confidence                0       00         001111222222222222  23779999999743                   0   


Q ss_pred             HHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCC-CCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCH
Q 007255          419 TEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPP-PDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTG  497 (611)
Q Consensus       419 ~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~-p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~  497 (611)
                       .++.+  ..+..||.||..+...... .   .....+.++. .+.++-.++|................++++.+.|. +
T Consensus       250 -~~~~~--~~~~~ilvTtR~~~~~~~~-~---~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~~~~~~~~i~~~~~gl-P  321 (1249)
T 3sfz_A          250 -VLKAF--DNQCQILLTTRDKSVTDSV-M---GPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKECKGS-P  321 (1249)
T ss_dssp             -HHTTT--CSSCEEEEEESSTTTTTTC-C---SCBCCEECCSSCCHHHHHHHHHHHHTSCSTTCCTHHHHHHHHTTTC-H
T ss_pred             -HHHhh--cCCCEEEEEcCCHHHHHhh-c---CCceEEEecCCCCHHHHHHHHHHhhCCChhhCcHHHHHHHHHhCCC-H
Confidence             12222  2234566677765433111 1   2234677775 88888888988666433322334467899999985 4


Q ss_pred             HHHHHHH
Q 007255          498 AELEGLC  504 (611)
Q Consensus       498 ~~i~~~~  504 (611)
                      =.|+.+.
T Consensus       322 Lal~~~~  328 (1249)
T 3sfz_A          322 LVVSLIG  328 (1249)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444433

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.27  E-value=0.00013  Score=68.08  Aligned_cols=35  Identities=34%  Similarity=0.431  Sum_probs=29.8

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      .+...++|.||||||||++++++|..++.+++..+
T Consensus        23 ~~~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~d   57 (199)
T 3vaa_A           23 NAMVRIFLTGYMGAGKTTLGKAFARKLNVPFIDLD   57 (199)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcch
Confidence            44567899999999999999999999999886543

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.26  E-value=0.00023  Score=65.41  Aligned_cols=32  Identities=25%  Similarity=0.215  Sum_probs=28.7

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      +..|+|+|||||||||+++.+|+.++.+++..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~   36 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDS   36 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            46899999999999999999999999887643

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.25  E-value=0.00035  Score=69.16  Aligned_cols=61  Identities=28%  Similarity=0.386  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc
Q 007255           25 RAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH   90 (611)
Q Consensus        25 ~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~   90 (611)
                      ++..+.+.+.+...+..     ......+..++|+||||+||||+++.+++.++..++.+++..+.
T Consensus        10 ~~~~~~~~~~~~~~l~~-----~~~~~~~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~D~~R   70 (287)
T 1gvn_B           10 KQFENRLNDNLEELIQG-----KKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFK   70 (287)
T ss_dssp             HHHHHHHHHHHHHHHTT-----CCCCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHHH
T ss_pred             HHHHHHHHHHHHHHhcc-----ccCCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEechHhH
Confidence            45555555555433221     12234567899999999999999999999986566777765544

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.25  E-value=0.00013  Score=66.94  Aligned_cols=33  Identities=18%  Similarity=0.282  Sum_probs=29.1

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      +..++|+||||||||++++.+|..++.+++..+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~d   37 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDSD   37 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            356899999999999999999999999987653

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.24  E-value=0.00074  Score=69.04  Aligned_cols=82  Identities=28%  Similarity=0.399  Sum_probs=50.2

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccccc----ccch--------HHHHHHHHHHHHhhhh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH----VGES--------EKALREAFSQASSHAL  113 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~----~~~~--------~~~l~~~f~~~~~~~~  113 (611)
                      |+.+...++|+||||+|||+++..++..+   +..++.++........    .+..        ......++..+.....
T Consensus        70 Gl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~  149 (366)
T 1xp8_A           70 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVR  149 (366)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHh
Confidence            46667789999999999999999887764   5667777655322110    0000        0011222222222222


Q ss_pred             cCCCeEEEEccccccCC
Q 007255          114 SGKPSVVFIDEIDALCP  130 (611)
Q Consensus       114 ~~~~~il~IDeid~l~~  130 (611)
                      ...+.+|+||.+..+.+
T Consensus       150 ~~~~~lVVIDsl~~l~~  166 (366)
T 1xp8_A          150 SGAIDVVVVDSVAALTP  166 (366)
T ss_dssp             TTCCSEEEEECTTTCCC
T ss_pred             cCCCCEEEEeChHHhcc
Confidence            34578999999998875

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=97.22  E-value=0.00044  Score=73.46  Aligned_cols=24  Identities=29%  Similarity=0.617  Sum_probs=22.2

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      .+++|.|+||||||+++.+++..+
T Consensus        46 ~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           46 HHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHH
Confidence            499999999999999999998876

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=97.20  E-value=0.0002  Score=68.15  Aligned_cols=29  Identities=31%  Similarity=0.290  Sum_probs=24.4

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      |+++..-+.|.||+|+|||++++.++...
T Consensus        21 gi~~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           21 GIETQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45566668999999999999999999854

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.19  E-value=0.00037  Score=65.98  Aligned_cols=69  Identities=16%  Similarity=0.142  Sum_probs=42.4

Q ss_pred             CcceeCCCCCChHHHHHHHHHHh---CCcEEeecchh-------hccccccch-----HHHHHHHHHHHHh----cCCcE
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAE-------LYSMYVGES-----EALLRNTFQRARL----AAPSI  386 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~-------~~~~~~g~~-----~~~~~~~~~~a~~----~~p~i  386 (611)
                      -++++||+|+|||+++..++..+   +..++.+++..       +.++ .|..     ......++..+..    ..+++
T Consensus        14 i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~sr-lG~~~~~~~~~~~~~i~~~i~~~~~~~~~dv   92 (223)
T 2b8t_A           14 IEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSR-TGTSLPSVEVESAPEILNYIMSNSFNDETKV   92 (223)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCC-CCCSSCCEEESSTHHHHHHHHSTTSCTTCCE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHh-cCCCccccccCCHHHHHHHHHHHhhCCCCCE
Confidence            46788999999999999888766   55555553221       1111 1110     0112345555554    34789


Q ss_pred             EEEcccccc
Q 007255          387 IFFDEADVV  395 (611)
Q Consensus       387 l~iDeid~l  395 (611)
                      |+|||+..+
T Consensus        93 ViIDEaQ~l  101 (223)
T 2b8t_A           93 IGIDEVQFF  101 (223)
T ss_dssp             EEECSGGGS
T ss_pred             EEEecCccC
Confidence            999999876

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.18  E-value=0.0011  Score=63.65  Aligned_cols=36  Identities=25%  Similarity=0.309  Sum_probs=26.7

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEee
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSL  355 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~  355 (611)
                      |+++..-++++||||+|||+++..+|...   +..++.+
T Consensus        19 Gl~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~   57 (247)
T 2dr3_A           19 GIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYV   57 (247)
T ss_dssp             SEETTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence            55666678999999999999998887543   4444443

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=97.17  E-value=0.00032  Score=71.48  Aligned_cols=29  Identities=31%  Similarity=0.290  Sum_probs=25.6

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      |+++..-+.|+||||+|||++++.++...
T Consensus       127 gi~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          127 GIETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            56666778999999999999999999876

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=97.17  E-value=0.00038  Score=72.10  Aligned_cols=118  Identities=15%  Similarity=0.162  Sum_probs=61.7

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---------CCcEEeecchhhccc--------ccc----------------
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---------EASFFSLSGAELYSM--------YVG----------------  366 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---------~~~~~~~~~~~~~~~--------~~g----------------  366 (611)
                      |+.+..-++|+||||+|||+|+..+|-..         +...++++..+....        ..|                
T Consensus       174 GI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~~~a~~~gl~~~~vleni~~~~~~  253 (400)
T 3lda_A          174 GVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAY  253 (400)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECC
T ss_pred             CcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHHHHHHHcCCChHhHhhcEEEeccC
Confidence            56666778999999999999999776433         233555554431110        000                


Q ss_pred             ch---HHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCC
Q 007255          367 ES---EALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR  438 (611)
Q Consensus       367 ~~---~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~  438 (611)
                      ..   ...+..+...+....|.+|+||++-.++...-. +........+.+..++..|..+....++.||+++..
T Consensus       254 ~~~~~~~~l~~~~~~l~~~~~~llVIDs~t~~~~~~~s-g~g~l~~Rq~~l~~il~~L~~lake~gitVIlv~Hv  327 (400)
T 3lda_A          254 NADHQLRLLDAAAQMMSESRFSLIVVDSVMALYRTDFS-GRGELSARQMHLAKFMRALQRLADQFGVAVVVTNQV  327 (400)
T ss_dssp             SHHHHHHHHHHHHHHHHHSCEEEEEEETGGGGCC-------CCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEEC
T ss_pred             ChHHHHHHHHHHHHHHHhcCCceEEecchhhhCchhhc-CccchHHHHHHHHHHHHHHHHHHHHcCCEEEEEEee
Confidence            01   112333344445567899999999887643211 001111112333445444443333334555555543

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.15  E-value=0.0031  Score=59.25  Aligned_cols=29  Identities=31%  Similarity=0.349  Sum_probs=23.9

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEE
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFF  353 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~  353 (611)
                      ..+++.|+||||||+++-.+|..+   |..+.
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~   38 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVM   38 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTCCEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCCEE
Confidence            458999999999999999998776   55544

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=97.14  E-value=0.0011  Score=64.69  Aligned_cols=37  Identities=19%  Similarity=0.392  Sum_probs=30.9

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHH---hCCcEEEEccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRE---CGAHLTVISPHSV   89 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~---l~~~~~~v~~~~~   89 (611)
                      +..|+|+|+||+||||+++.+++.   .|..++.++...+
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~D~~   43 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLI   43 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECTHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECchHH
Confidence            467999999999999999999998   6777776665544

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=97.10  E-value=0.00034  Score=63.90  Aligned_cols=32  Identities=31%  Similarity=0.519  Sum_probs=28.3

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .+..|+|+|+||+||||+++.+++.++..++.
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~~~~~~~   41 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKSGLKYIN   41 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHhCCeEEE
Confidence            45689999999999999999999999877654

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.09  E-value=0.00023  Score=65.72  Aligned_cols=34  Identities=26%  Similarity=0.311  Sum_probs=28.9

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ..+.-++|.|+||+|||++++.++..++.+++..
T Consensus         3 ~~~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~~   36 (193)
T 2rhm_A            3 QTPALIIVTGHPATGKTTLSQALATGLRLPLLSK   36 (193)
T ss_dssp             SCCEEEEEEESTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHcCCeEecH
Confidence            3445689999999999999999999999887653

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=97.09  E-value=0.00059  Score=69.42  Aligned_cols=82  Identities=27%  Similarity=0.425  Sum_probs=49.6

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccccc----ccch--------HHHHHHHHHHHHhhhh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH----VGES--------EKALREAFSQASSHAL  113 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~----~~~~--------~~~l~~~f~~~~~~~~  113 (611)
                      |+.+..-++++||||+|||+++..++..+   +...+.++........    .|..        .....+.+..+.....
T Consensus        57 Gl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~  136 (349)
T 2zr9_A           57 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVR  136 (349)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHh
Confidence            45667789999999999999999987654   5566666654321110    0100        0011222222222222


Q ss_pred             cCCCeEEEEccccccCC
Q 007255          114 SGKPSVVFIDEIDALCP  130 (611)
Q Consensus       114 ~~~~~il~IDeid~l~~  130 (611)
                      ...+.+|+||++..+.+
T Consensus       137 ~~~~~lIVIDsl~~l~~  153 (349)
T 2zr9_A          137 SGALDIIVIDSVAALVP  153 (349)
T ss_dssp             TTCCSEEEEECGGGCCC
T ss_pred             cCCCCEEEEcChHhhcc
Confidence            34588999999998874

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.06  E-value=0.00044  Score=62.42  Aligned_cols=31  Identities=19%  Similarity=0.161  Sum_probs=27.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~   85 (611)
                      .|+|.||||+||||+++.+++.++..++..+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~~~i~~d   33 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKYPIIKGS   33 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCCCEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeecCc
Confidence            6899999999999999999999998765443

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=97.04  E-value=0.00039  Score=63.54  Aligned_cols=33  Identities=33%  Similarity=0.523  Sum_probs=28.7

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      .+..++|+|+||+|||++++.+|..++..++..
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~   42 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKSGLKYINV   42 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHhCCeEEEH
Confidence            345699999999999999999999999887654

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=97.03  E-value=0.0004  Score=63.81  Aligned_cols=32  Identities=34%  Similarity=0.465  Sum_probs=27.2

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHH-hCCcEEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRE-CGAHLTV   83 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~-l~~~~~~   83 (611)
                      .+..|+|+|+|||||||+++.+++. +|.+++.
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~l~g~~~id   41 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAELDGFQHLE   41 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHSTTEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhcCCCEEee
Confidence            3568999999999999999999999 6766543

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.03  E-value=0.0021  Score=66.95  Aligned_cols=72  Identities=17%  Similarity=0.087  Sum_probs=48.2

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhh-------------------ccc-cccchHHHHHHHHHHH
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAEL-------------------YSM-YVGESEALLRNTFQRA  379 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~-------------------~~~-~~g~~~~~~~~~~~~a  379 (611)
                      ++.-+++.|++|+||||++..+|..+   |..+..+.+..+                   ... ...+....++..+..+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a  178 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYF  178 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHH
Confidence            35678999999999999999999776   455544443211                   000 1123344556677777


Q ss_pred             HhcCCcEEEEccccc
Q 007255          380 RLAAPSIIFFDEADV  394 (611)
Q Consensus       380 ~~~~p~il~iDeid~  394 (611)
                      +....++++||....
T Consensus       179 ~~~~~DvVIIDTaGr  193 (443)
T 3dm5_A          179 KSKGVDIIIVDTAGR  193 (443)
T ss_dssp             HHTTCSEEEEECCCC
T ss_pred             HhCCCCEEEEECCCc
Confidence            777788999998743

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.03  E-value=0.0059  Score=56.03  Aligned_cols=113  Identities=12%  Similarity=0.162  Sum_probs=67.4

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccc---------cccccc-------------c----chHHHHHH
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHS---------VHKAHV-------------G----ESEKALRE  103 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~---------~~~~~~-------------~----~~~~~l~~  103 (611)
                      ...|++++++|.||||+|-.+|-..   |..+..+..-.         +.....             .    ........
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~~  107 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMA  107 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHHH
Confidence            3689999999999999999887654   66655552211         111110             0    01234456


Q ss_pred             HHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhc
Q 007255          104 AFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRR  181 (611)
Q Consensus       104 ~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~  181 (611)
                      .+..+......++..+|++||+.....-+--       -...++.++...      +.+.-+|.|.|.+   ++++..
T Consensus       108 ~l~~a~~~l~~~~yDlvILDEi~~al~~g~l-------~~~ev~~~l~~R------p~~~~vIlTGr~a---p~~l~e  169 (196)
T 1g5t_A          108 VWQHGKRMLADPLLDMVVLDELTYMVAYDYL-------PLEEVISALNAR------PGHQTVIITGRGC---HRDILD  169 (196)
T ss_dssp             HHHHHHHHTTCTTCSEEEEETHHHHHHTTSS-------CHHHHHHHHHTS------CTTCEEEEECSSC---CHHHHH
T ss_pred             HHHHHHHHHhcCCCCEEEEeCCCccccCCCC-------CHHHHHHHHHhC------cCCCEEEEECCCC---cHHHHH
Confidence            6666766665677889999999654221100       024566777642      2245677777763   555544

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=97.02  E-value=0.00024  Score=77.37  Aligned_cols=97  Identities=22%  Similarity=0.318  Sum_probs=54.1

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccccc----cchHHHHHHHHHHH---------HhcCCcEEE
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYV----GESEALLRNTFQRA---------RLAAPSIIF  388 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~~----g~~~~~~~~~~~~a---------~~~~p~il~  388 (611)
                      ..+++.||||||||+++.+++..+   +..+....++.-..+..    +.....++.++...         .....++|+
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~ApT~~Aa~~L~e~~~~~a~Tih~ll~~~~~~~~~~~~~~~~~dvlI  284 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGKAARRLGEVTGRTASTVHRLLGYGPQGFRHNHLEPAPYDLLI  284 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHHHHHHHHHHHTSCEEEHHHHTTEETTEESCSSSSCCSCSEEE
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecCcHHHHHHhHhhhcccHHHHHHHHcCCcchhhhhhcccccCCEEE
Confidence            468899999999999999998765   55555443322111100    00001122222100         011347999


Q ss_pred             EcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCC
Q 007255          389 FDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR  438 (611)
Q Consensus       389 iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~  438 (611)
                      |||+..+              ....+..|+..+   ....+++++|=.++
T Consensus       285 IDEasml--------------~~~~~~~Ll~~~---~~~~~lilvGD~~Q  317 (574)
T 3e1s_A          285 VDEVSMM--------------GDALMLSLLAAV---PPGARVLLVGDTDQ  317 (574)
T ss_dssp             ECCGGGC--------------CHHHHHHHHTTS---CTTCEEEEEECTTS
T ss_pred             EcCccCC--------------CHHHHHHHHHhC---cCCCEEEEEecccc
Confidence            9999766              133455555444   35566777776554

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.02  E-value=0.00047  Score=62.65  Aligned_cols=29  Identities=24%  Similarity=0.453  Sum_probs=26.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .++|.||||+||||+++.+|+.++.+++.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~~~~d   34 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDLVFLD   34 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCEEc
Confidence            69999999999999999999999987653

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.01  E-value=0.0004  Score=64.01  Aligned_cols=39  Identities=26%  Similarity=0.290  Sum_probs=32.1

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccc
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~   88 (611)
                      +.++..++|+||+|+||||+++.++...+...+.++..+
T Consensus         6 i~~g~~i~l~G~~GsGKSTl~~~La~~~~~g~i~i~~d~   44 (191)
T 1zp6_A            6 DLGGNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDD   44 (191)
T ss_dssp             CCTTEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHhccCCCeEEEcccc
Confidence            455678999999999999999999998776667776544

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.99  E-value=0.0021  Score=61.60  Aligned_cols=38  Identities=29%  Similarity=0.383  Sum_probs=28.9

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~   86 (611)
                      |+.+...++++||||+|||+++..++...   +...+.++.
T Consensus        19 Gl~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~   59 (247)
T 2dr3_A           19 GIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVAL   59 (247)
T ss_dssp             SEETTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEc
Confidence            56677889999999999999988776543   455555543

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.98  E-value=0.00036  Score=64.14  Aligned_cols=32  Identities=25%  Similarity=0.372  Sum_probs=27.4

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHH-hCCcEEee
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHA-AEASFFSL  355 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~-~~~~~~~~  355 (611)
                      +..++|+|+||||||++++.+|.. +|.+++..
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~l~g~~~id~   42 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAELDGFQHLEV   42 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHSTTEEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCCEEeeH
Confidence            446899999999999999999999 68777654

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.98  E-value=0.00054  Score=61.79  Aligned_cols=30  Identities=27%  Similarity=0.305  Sum_probs=27.6

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .+|+|.|+|||||||+++.+++.++.+++.
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg~~~id   37 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALKLEVLD   37 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEE
Confidence            589999999999999999999999988764

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.98  E-value=0.00061  Score=64.20  Aligned_cols=39  Identities=21%  Similarity=0.366  Sum_probs=31.8

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH   90 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~   90 (611)
                      .+.++-|+|.||||+||+|.++.+++.++..  +++..++.
T Consensus        26 ~~k~kiI~llGpPGsGKgTqa~~L~~~~g~~--hIstGdll   64 (217)
T 3umf_A           26 LAKAKVIFVLGGPGSGKGTQCEKLVQKFHFN--HLSSGDLL   64 (217)
T ss_dssp             TTSCEEEEEECCTTCCHHHHHHHHHHHHCCE--EECHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHCCc--eEcHHHHH
Confidence            4566789999999999999999999999865  55655544

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=96.98  E-value=0.00034  Score=70.59  Aligned_cols=28  Identities=18%  Similarity=0.235  Sum_probs=24.1

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      |+++..-++++||||+|||++|..+|..
T Consensus        94 Gl~~g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           94 GLESQSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            5566667899999999999999999875

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.97  E-value=0.00038  Score=63.29  Aligned_cols=30  Identities=30%  Similarity=0.397  Sum_probs=27.0

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      .++|.||||+|||++++++|..++.+++..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~~~~d~   35 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDLVFLDS   35 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            588999999999999999999999887653

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.97  E-value=0.00053  Score=62.04  Aligned_cols=30  Identities=27%  Similarity=0.576  Sum_probs=26.4

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      +..+.|.||+|+||||+++.++..++..++
T Consensus         4 ~~~i~l~G~~GsGKSTl~~~La~~l~~~~i   33 (173)
T 1kag_A            4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFY   33 (173)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHTTCEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            357999999999999999999999987544

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.97  E-value=0.001  Score=66.37  Aligned_cols=36  Identities=28%  Similarity=0.480  Sum_probs=31.0

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~   88 (611)
                      +..++|+||+|+|||++++.+|+.++..++..+.-.
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l~~~iis~Ds~q   40 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADALPCELISVDSAL   40 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEEECTTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCcEEeccchh
Confidence            357999999999999999999999998877776543

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.96  E-value=0.00044  Score=63.39  Aligned_cols=30  Identities=30%  Similarity=0.513  Sum_probs=26.9

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ..|+|+|+||+||||+++.+++.++.+++.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg~~~id   32 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKALGVGLLD   32 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCCCEEe
Confidence            358999999999999999999999988654

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=96.96  E-value=0.0037  Score=66.95  Aligned_cols=74  Identities=20%  Similarity=0.246  Sum_probs=50.8

Q ss_pred             cEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCc--ccchhccCCCCccceeecCCCC
Q 007255          385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH--AIDAALMRPGRFDLVLYVPPPD  462 (611)
Q Consensus       385 ~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~--~ld~al~r~gRf~~~i~~~~p~  462 (611)
                      -+|+|||++.++...+       ......+..+...    ...-++.+|++|.+|.  .++..++.  -|...|.+...+
T Consensus       345 ivvVIDE~~~L~~~~~-------~~~~~~L~~Iar~----GRa~GIhLIlaTQRPs~d~I~~~Ira--n~~~RI~lrv~s  411 (574)
T 2iut_A          345 IVVVVDEFADMMMIVG-------KKVEELIARIAQK----ARAAGIHLILATQRPSVDVITGLIKA--NIPTRIAFQVSS  411 (574)
T ss_dssp             EEEEESCCTTHHHHTC-------HHHHHHHHHHHHH----CTTTTEEEEEEESCCCTTTSCHHHHH--TCCEEEEECCSC
T ss_pred             EEEEEeCHHHHhhhhh-------HHHHHHHHHHHHH----HhhCCeEEEEEecCcccccccHHHHh--hhccEEEEEcCC
Confidence            4899999998864310       1112222333222    3456789999999998  78877776  677888898899


Q ss_pred             HHHHHHHHH
Q 007255          463 LEARHEILR  471 (611)
Q Consensus       463 ~~~r~~il~  471 (611)
                      ..+...|+.
T Consensus       412 ~~Dsr~ILd  420 (574)
T 2iut_A          412 KIDSRTILD  420 (574)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHhcC
Confidence            888877875

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.95  E-value=0.00045  Score=62.39  Aligned_cols=31  Identities=26%  Similarity=0.339  Sum_probs=27.5

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      -++|.||||+|||++++.++..++.+++..+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~~~i~~d   33 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKYPIIKGS   33 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCCCEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeecCc
Confidence            3789999999999999999999998886654

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.94  E-value=0.00083  Score=62.55  Aligned_cols=33  Identities=27%  Similarity=0.414  Sum_probs=28.6

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      .+..|+|+|+||+||||+++.+++.++.+++..
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            456799999999999999999999999876543

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.93  E-value=0.00072  Score=63.99  Aligned_cols=32  Identities=25%  Similarity=0.361  Sum_probs=28.0

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .+..|+|.|+||+||||+++.+++.++..++.
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~   34 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERFHAAHLA   34 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcCceEEe
Confidence            35689999999999999999999999976544

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.93  E-value=0.00036  Score=70.31  Aligned_cols=53  Identities=13%  Similarity=0.295  Sum_probs=38.5

Q ss_pred             CCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           22 GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        22 ~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ++++..++.+...+...+..         ....+++|+||+|+||||+++.+|+.++.+++.
T Consensus         2 ~~~~~L~~~il~~l~~~i~~---------g~~~~i~l~G~~G~GKTTl~~~la~~l~~~f~~   54 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIED---------NYRVCVILVGSPGSGKSTIAEELCQIINEKYHT   54 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTT---------CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhcc---------CCeeEEEEECCCCCcHHHHHHHHHHHhCCCeee
Confidence            45667777776666442221         122579999999999999999999999877644

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=96.92  E-value=0.0017  Score=64.16  Aligned_cols=82  Identities=21%  Similarity=0.265  Sum_probs=48.4

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEcccccccc----cccc--------hHHHHHHH-HHHHHh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKA----HVGE--------SEKALREA-FSQASS  110 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l-----~~~~~~v~~~~~~~~----~~~~--------~~~~l~~~-f~~~~~  110 (611)
                      |+.+. -++++||||+|||+++-.++...     +..+++++...-...    ..|.        .......+ +..+..
T Consensus        25 Gl~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~ra~~lGvd~d~llv~~~~~~E~~~l~i~~~  103 (333)
T 3io5_A           25 GMQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAYLRSMGVDPERVIHTPVQSLEQLRIDMVNQ  103 (333)
T ss_dssp             CBCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHHHHHTTCCGGGEEEEECSBHHHHHHHHHHH
T ss_pred             CCcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHHHHHhCCCHHHeEEEcCCCHHHHHHHHHHH
Confidence            45555 68999999999999988775543     566777776532210    0000        00011222 222111


Q ss_pred             h--hhcCCCeEEEEccccccCCC
Q 007255          111 H--ALSGKPSVVFIDEIDALCPR  131 (611)
Q Consensus       111 ~--~~~~~~~il~IDeid~l~~~  131 (611)
                      .  .....|.+++||-+..+.+.
T Consensus       104 l~~i~~~~~~lvVIDSI~aL~~~  126 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGNLASK  126 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTTCBCC
T ss_pred             HHHhhccCceEEEEecccccccc
Confidence            1  23457999999999999863

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.92  E-value=0.00055  Score=63.29  Aligned_cols=33  Identities=21%  Similarity=0.357  Sum_probs=28.5

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      .+..|+|.|+||+||||+++.+++.++..++..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~   40 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKYGYTHLST   40 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            456899999999999999999999999775543

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.92  E-value=0.00073  Score=66.84  Aligned_cols=39  Identities=23%  Similarity=0.358  Sum_probs=30.9

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      .+..++|.||||+|||++|+.++..++..++.+++..+.
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~D~~R   70 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFK   70 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEechHhH
Confidence            345688999999999999999999985556667665443

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.91  E-value=0.00048  Score=65.58  Aligned_cols=33  Identities=15%  Similarity=0.258  Sum_probs=27.8

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ..+..|+|.|+||+||||+++.+++.++..++.
T Consensus         5 ~~~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~   37 (227)
T 1zd8_A            5 ARLLRAVIMGAPGSGKGTVSSRITTHFELKHLS   37 (227)
T ss_dssp             --CCEEEEEECTTSSHHHHHHHHHHHSSSEEEE
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHHHHcCCeEEe
Confidence            345789999999999999999999999876554

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.91  E-value=0.0013  Score=63.87  Aligned_cols=39  Identities=21%  Similarity=0.346  Sum_probs=32.2

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~  360 (611)
                      ..+..++|.||||+|||++|+.++..++..++.++...+
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~l~~~~~~~~~D~~   68 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSF   68 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHHTTTCCEEECGGGG
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHhcCCCcEEEecHHH
Confidence            345568999999999999999999999866666776665

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.91  E-value=0.00049  Score=63.04  Aligned_cols=31  Identities=29%  Similarity=0.464  Sum_probs=27.6

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      .++|.|+||+|||++|+.+|..+|.+++..+
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id~D   34 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALGVGLLDTD   34 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCEEeCc
Confidence            4889999999999999999999999886543

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.91  E-value=0.00045  Score=62.31  Aligned_cols=31  Identities=23%  Similarity=0.262  Sum_probs=28.2

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ..++|.|+||||||++++.+|..++.+++..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg~~~id~   38 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALKLEVLDT   38 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            4689999999999999999999999998764

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.89  E-value=0.00076  Score=62.18  Aligned_cols=30  Identities=27%  Similarity=0.483  Sum_probs=26.9

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      |..|+|.|+||+||||+++.+++.++.+++
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~~~~i   32 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYGYTHL   32 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            467999999999999999999999987654

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=96.88  E-value=0.0081  Score=63.85  Aligned_cols=76  Identities=20%  Similarity=0.320  Sum_probs=47.9

Q ss_pred             CC-eEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcc--cccHHhhccCCcceEEEcc
Q 007255          116 KP-SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD--AIDPALRRSGRFDAEVEVT  192 (611)
Q Consensus       116 ~~-~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~--~l~~~l~~~~Rf~~~i~~~  192 (611)
                      .| .+++|||+..+...      ....+...+..+.......     .+.+|.+|.++.  .++..++.  .|...|.|.
T Consensus       296 lP~ivlvIDE~~~ll~~------~~~~~~~~l~~Lar~gRa~-----GI~LIlaTQrp~~dvl~~~i~~--n~~~RI~lr  362 (512)
T 2ius_A          296 EPYIVVLVDEFADLMMT------VGKKVEELIARLAQKARAA-----GIHLVLATQRPSVDVITGLIKA--NIPTRIAFT  362 (512)
T ss_dssp             CCEEEEEEETHHHHHHH------HHHHHHHHHHHHHHHCGGG-----TEEEEEEESCCCTTTSCHHHHH--HCCEEEEEC
T ss_pred             CCcEEEEEeCHHHHHhh------hhHHHHHHHHHHHHHhhhC-----CcEEEEEecCCccccccHHHHh--hcCCeEEEE
Confidence            35 48999999776541      1112233333333332211     255666666655  68888887  788889999


Q ss_pred             CCCHHHHHHHHH
Q 007255          193 VPTAEERFEILK  204 (611)
Q Consensus       193 ~p~~~~r~~Il~  204 (611)
                      ..+..+...|+.
T Consensus       363 v~s~~dsr~ilg  374 (512)
T 2ius_A          363 VSSKIDSRTILD  374 (512)
T ss_dssp             CSSHHHHHHHHS
T ss_pred             cCCHHHHHHhcC
Confidence            999999888875

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.88  E-value=0.00065  Score=62.27  Aligned_cols=30  Identities=27%  Similarity=0.566  Sum_probs=26.3

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      +..|+|.|+||+||||+++.+++.++..++
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l~~~~i   33 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQELGFKKL   33 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHHTCEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCeEe
Confidence            357999999999999999999999986543

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.86  E-value=0.0012  Score=64.03  Aligned_cols=40  Identities=33%  Similarity=0.483  Sum_probs=33.2

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~   89 (611)
                      ...|..++|.|+||+||||+++.+++.++...+.++...+
T Consensus        29 ~~~~~~i~l~G~~GsGKSTla~~L~~~l~~~~~~~~~D~~   68 (253)
T 2p5t_B           29 SKQPIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSF   68 (253)
T ss_dssp             CSSCEEEEEESCGGGTTHHHHHHHHHHTTTCCEEECGGGG
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHhcCCCcEEEecHHH
Confidence            3456789999999999999999999999866666776554

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.86  E-value=0.00061  Score=61.57  Aligned_cols=30  Identities=33%  Similarity=0.719  Sum_probs=26.1

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      ..|+|+||||+||||+++.+ +.+|.+++.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~g~~~i~~   31 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KERGAKVIVM   31 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHTTCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHCCCcEEEH
Confidence            46899999999999999999 8888886653

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.86  E-value=0.0007  Score=65.67  Aligned_cols=32  Identities=28%  Similarity=0.513  Sum_probs=28.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~   86 (611)
                      .++|+|||||||||+++.+|+.++..++..+.
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~~~~i~~D~   34 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETGWPVVALDR   34 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCCEEECCS
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCCCeEEeccH
Confidence            57899999999999999999999988776553

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.86  E-value=0.00069  Score=61.30  Aligned_cols=30  Identities=30%  Similarity=0.607  Sum_probs=26.5

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      ..+.|.||+|+|||++++.+|..++..++.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~~~~id   34 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYD   34 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEe
Confidence            458899999999999999999999976654

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.85  E-value=0.00069  Score=65.28  Aligned_cols=34  Identities=18%  Similarity=0.192  Sum_probs=29.2

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      ..|..|+|.||||+||||+++.+++.++...+..
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~   60 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSHCYCHLST   60 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            3567899999999999999999999998765543

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.85  E-value=0.00072  Score=63.89  Aligned_cols=32  Identities=28%  Similarity=0.488  Sum_probs=27.9

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      ...|+|.|+||+||||+++.+++.++..++..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            46799999999999999999999999776543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.84  E-value=0.0006  Score=62.07  Aligned_cols=32  Identities=28%  Similarity=0.495  Sum_probs=25.3

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHH-HhCCcEEEEcc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVR-ECGAHLTVISP   86 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~-~l~~~~~~v~~   86 (611)
                      |..|+|.|+||+||||+++.+++ .++  +..++.
T Consensus         2 ~~~I~i~G~~GsGKST~a~~L~~~~~~--~~~i~~   34 (181)
T 1ly1_A            2 KKIILTIGCPGSGKSTWAREFIAKNPG--FYNINR   34 (181)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHSTT--EEEECH
T ss_pred             CeEEEEecCCCCCHHHHHHHHHhhcCC--cEEecH
Confidence            35789999999999999999998 454  444443

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.84  E-value=0.0036  Score=63.67  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=23.1

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      +...+++.||+|+||||++++++..+
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~  147 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYL  147 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            44579999999999999999998876

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.84  E-value=0.0013  Score=63.20  Aligned_cols=78  Identities=17%  Similarity=0.186  Sum_probs=48.8

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh----CCcEEeecch----hhccc----------------------------
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGA----ELYSM----------------------------  363 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~~~----~~~~~----------------------------  363 (611)
                      |+++..-++++|+||+|||++|..+|...    +.+++.++..    .+...                            
T Consensus        26 Gl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~  105 (251)
T 2zts_A           26 GFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEERARDLRREMASFGWDFEKYEKEGKIAIVDGVSSVVG  105 (251)
T ss_dssp             SEETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHHHTTTCCHHHHHHTTSEEEEC-------
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecccCCHHHHHHHHHHcCCChHHHHhcCcchhhhhHHHHhh
Confidence            56666678999999999999998776432    4555444321    11000                            


Q ss_pred             ------c----ccchHHHHHHHHHHHHhcCCcEEEEcccccccc
Q 007255          364 ------Y----VGESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (611)
Q Consensus       364 ------~----~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~  397 (611)
                            +    .......+..+...++...+..++||.+..+..
T Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vviD~~~~l~~  149 (251)
T 2zts_A          106 LPSEEKFVLEDRFNVDNFLRYIYRVVKAINAKRLVIDSIPSIAL  149 (251)
T ss_dssp             ------------CCHHHHHHHHHHHHHHTTCSEEEEECHHHHHH
T ss_pred             cccchhccccccccHHHHHHHHHHHHHhcCCcEEEEEcHHHHhh
Confidence                  0    001123344555566777888999999987753

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=96.83  E-value=0.0047  Score=67.11  Aligned_cols=165  Identities=16%  Similarity=0.136  Sum_probs=89.1

Q ss_pred             cchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHH----HhCCc-----EEeecch-----
Q 007255          293 GGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAH----AAEAS-----FFSLSGA-----  358 (611)
Q Consensus       293 ~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~----~~~~~-----~~~~~~~-----  358 (611)
                      +|.+..++.|.+.+...          +....+.+.++|++|+|||+||+.+++    .....     ++.++..     
T Consensus       131 ~GR~~~~~~l~~~L~~~----------~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~  200 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEM----------CDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKST  200 (549)
T ss_dssp             CCCHHHHHHHHHHHHHH----------TTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHH
T ss_pred             CCchHHHHHHHHHHhcc----------cCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCH
Confidence            49988888888877531          112345688999999999999999997    23221     2233221     


Q ss_pred             -hhcc----ccc------------cchHHHHHHHHHHHHhc-CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHH
Q 007255          359 -ELYS----MYV------------GESEALLRNTFQRARLA-APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTE  420 (611)
Q Consensus       359 -~~~~----~~~------------g~~~~~~~~~~~~a~~~-~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~  420 (611)
                       .+..    ...            ......+...+...-.. .+.+|++|+++..               ..+  .+. .
T Consensus       201 ~~~~~~il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~---------------~~~--~~~-~  262 (549)
T 2a5y_B          201 FDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE---------------ETI--RWA-Q  262 (549)
T ss_dssp             HHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCH---------------HHH--HHH-H
T ss_pred             HHHHHHHHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCc---------------hhh--ccc-c
Confidence             0000    000            00111122223322234 3789999999743               111  111 1


Q ss_pred             hcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCc--ccHHHHHHhCCCC
Q 007255          421 MDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDD--VDLRSIAEETELF  495 (611)
Q Consensus       421 l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~--~~~~~la~~~~g~  495 (611)
                      .      .+..||.||........  ..  .....+.++..+.++-.++|.......+...+  .....+++.+.|.
T Consensus       263 ~------~gs~ilvTTR~~~v~~~--~~--~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~Gl  329 (549)
T 2a5y_B          263 E------LRLRCLVTTRDVEISNA--AS--QTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGN  329 (549)
T ss_dssp             H------TTCEEEEEESBGGGGGG--CC--SCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTC
T ss_pred             c------CCCEEEEEcCCHHHHHH--cC--CCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCC
Confidence            1      34456667765443211  11  12346888899999999999866432221111  1245677777774

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=96.82  E-value=0.0071  Score=57.84  Aligned_cols=34  Identities=24%  Similarity=0.384  Sum_probs=28.2

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~   87 (611)
                      ..++++||+|+|||.++..++..++...+.+.+.
T Consensus       109 ~~~ll~~~tG~GKT~~a~~~~~~~~~~~liv~P~  142 (237)
T 2fz4_A          109 KRGCIVLPTGSGKTHVAMAAINELSTPTLIVVPT  142 (237)
T ss_dssp             SEEEEEESSSTTHHHHHHHHHHHSCSCEEEEESS
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHcCCCEEEEeCC
Confidence            4699999999999999999998887766665543

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.82  E-value=0.00096  Score=62.15  Aligned_cols=31  Identities=29%  Similarity=0.637  Sum_probs=27.4

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      +..|+|+|++|+||||+++.+++.++..++.
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg~~~i~   48 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACGYPFIE   48 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHTCCEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCEEEe
Confidence            4679999999999999999999999876554

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.82  E-value=0.0018  Score=67.38  Aligned_cols=72  Identities=18%  Similarity=0.042  Sum_probs=44.0

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhc--------------c--cc---c-cchHHHHHHHHHHH
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELY--------------S--MY---V-GESEALLRNTFQRA  379 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~--------------~--~~---~-g~~~~~~~~~~~~a  379 (611)
                      ++.-+++.||+|+||||++..+|..+   +..+..+.+....              +  -+   . .+........+..+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~~dp~~i~~~al~~a  175 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKGVDIF  175 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTCSCHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccchhHHHHHHHHHHhcCCceeeccccCCHHHHHHHHHHHH
Confidence            35668899999999999999999776   5555444322110              0  00   0 11222333444455


Q ss_pred             HhcCCcEEEEccccc
Q 007255          380 RLAAPSIIFFDEADV  394 (611)
Q Consensus       380 ~~~~p~il~iDeid~  394 (611)
                      ....+++++||....
T Consensus       176 ~~~~~DvvIIDTaGr  190 (433)
T 3kl4_A          176 VKNKMDIIIVDTAGR  190 (433)
T ss_dssp             TTTTCSEEEEEECCC
T ss_pred             HhcCCCEEEEECCCC
Confidence            545788999998754

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.82  E-value=0.00078  Score=61.95  Aligned_cols=26  Identities=19%  Similarity=0.369  Sum_probs=24.0

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +..|+|.|+||+||||+++.+++.++
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35799999999999999999999887

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.81  E-value=0.00065  Score=65.91  Aligned_cols=31  Identities=26%  Similarity=0.318  Sum_probs=28.2

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEeecc
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~  357 (611)
                      +++.||||+|||++|+.+|..++..++..+.
T Consensus         4 i~I~G~~GSGKSTla~~La~~~~~~~i~~D~   34 (253)
T 2ze6_A            4 HLIYGPTCSGKTDMAIQIAQETGWPVVALDR   34 (253)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCCEEECCS
T ss_pred             EEEECCCCcCHHHHHHHHHhcCCCeEEeccH
Confidence            6899999999999999999999998877664

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=96.81  E-value=0.0021  Score=64.71  Aligned_cols=40  Identities=20%  Similarity=0.311  Sum_probs=32.5

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---------CCcEEEEcccc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---------GAHLTVISPHS   88 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---------~~~~~~v~~~~   88 (611)
                      |+++..-++++||||+|||+++..++...         +...++++...
T Consensus       103 Gl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~  151 (324)
T 2z43_A          103 GIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEG  151 (324)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             CCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            56677889999999999999999998865         45677776654

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.80  E-value=0.00049  Score=63.41  Aligned_cols=40  Identities=28%  Similarity=0.287  Sum_probs=31.9

Q ss_pred             CCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhh
Q 007255          321 ISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (611)
Q Consensus       321 ~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~  360 (611)
                      +.++..+.|.||||+||||+++.++...+...+.++..++
T Consensus         6 i~~g~~i~l~G~~GsGKSTl~~~La~~~~~g~i~i~~d~~   45 (191)
T 1zp6_A            6 DLGGNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDL   45 (191)
T ss_dssp             CCTTEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHhccCCCeEEEcccch
Confidence            3445568899999999999999999887777677766544

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.80  E-value=0.00074  Score=68.79  Aligned_cols=98  Identities=20%  Similarity=0.219  Sum_probs=56.8

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh----CCcEEeec-chhhcc---------ccccchHHHHHHHHHHHHhcCCcEEEE
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLS-GAELYS---------MYVGESEALLRNTFQRARLAAPSIIFF  389 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~-~~~~~~---------~~~g~~~~~~~~~~~~a~~~~p~il~i  389 (611)
                      ...+++.||+|+||||+.++++..+    +..++.+. +.++..         ...+.....+...+..+-...|++|++
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL~~~Pdvill  202 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSALREDPDIILV  202 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHTTSCCSEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHhhhCcCEEec
Confidence            3458899999999999999998876    23333322 111110         111111122344566666688999999


Q ss_pred             cccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          390 DEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       390 Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      ||+-.                ......++....    . +..+|.++...+..
T Consensus       203 DEp~d----------------~e~~~~~~~~~~----~-G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          203 GEMRD----------------LETIRLALTAAE----T-GHLVFGTLHTTSAA  234 (356)
T ss_dssp             SCCCS----------------HHHHHHHHHHHH----T-TCEEEEEESCSSHH
T ss_pred             CCCCC----------------HHHHHHHHHHHh----c-CCEEEEEEccChHH
Confidence            99831                223344444432    2 33577777776654

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.80  E-value=0.00094  Score=60.35  Aligned_cols=30  Identities=23%  Similarity=0.432  Sum_probs=26.7

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ..|+|.|+||+||||+++.+++.++.+++.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg~~~id   32 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALGYEFVD   32 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCcEEc
Confidence            468999999999999999999999987554

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.79  E-value=0.0011  Score=63.32  Aligned_cols=32  Identities=22%  Similarity=0.328  Sum_probs=28.0

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .+..|+|.|+||+||||+++.+++.++..++.
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~   46 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNFCVCHLA   46 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            34689999999999999999999999976554

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.79  E-value=0.00074  Score=62.59  Aligned_cols=31  Identities=23%  Similarity=0.403  Sum_probs=27.2

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      +..|+|.|+||+||||+++.+++.++..++.
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~~~~i~   42 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYGFTHLS   42 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEc
Confidence            4689999999999999999999999966543

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=96.79  E-value=0.00081  Score=66.27  Aligned_cols=29  Identities=24%  Similarity=0.211  Sum_probs=23.9

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      |+++..-++|+||+|+|||+++..++..+
T Consensus        26 gl~~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           26 NMVAGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CccCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            44555678999999999999999998654

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.79  E-value=0.00064  Score=62.11  Aligned_cols=30  Identities=20%  Similarity=0.306  Sum_probs=23.4

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      +..|+|.|+||+||||+++.+++.++.+++
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i   34 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLPGSFV   34 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHSTTCEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            467999999999999999999999998765

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.78  E-value=0.00076  Score=63.95  Aligned_cols=31  Identities=16%  Similarity=0.274  Sum_probs=27.2

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      .+..|+|.||||+||||+++.+++.++..++
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~~~~i   34 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQLAHI   34 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHCCEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCcee
Confidence            4568999999999999999999999996543

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.76  E-value=0.00076  Score=62.82  Aligned_cols=31  Identities=35%  Similarity=0.369  Sum_probs=27.4

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ..++|.|+||+|||++|+.++..++.+++..
T Consensus        21 ~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           21 MRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            3588999999999999999999999887654

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=96.76  E-value=0.0032  Score=57.81  Aligned_cols=102  Identities=16%  Similarity=0.124  Sum_probs=59.6

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEee---cc------hhhccccc-------------cc----hHHHHHHH
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSL---SG------AELYSMYV-------------GE----SEALLRNT  375 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~---~~------~~~~~~~~-------------g~----~~~~~~~~  375 (611)
                      ..+++|+++|.|||++|-++|-.+   |..+..+   ..      .++.....             .+    ........
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~~~  108 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMAV  108 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHHHH
Confidence            358899999999999999999776   5555544   22      12232220             00    12344555


Q ss_pred             HHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCC
Q 007255          376 FQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP  439 (611)
Q Consensus       376 ~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~  439 (611)
                      +..++.    ...++|++||+-....-+      -.+     ...++..+.  ..+.+.-||.|+|.+
T Consensus       109 l~~a~~~l~~~~yDlvILDEi~~al~~g------~l~-----~~ev~~~l~--~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          109 WQHGKRMLADPLLDMVVLDELTYMVAYD------YLP-----LEEVISALN--ARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHTTCTTCSEEEEETHHHHHHTT------SSC-----HHHHHHHHH--TSCTTCEEEEECSSC
T ss_pred             HHHHHHHHhcCCCCEEEEeCCCccccCC------CCC-----HHHHHHHHH--hCcCCCEEEEECCCC
Confidence            555554    346799999996532111      001     234555555  244556667788764

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.76  E-value=0.0023  Score=62.21  Aligned_cols=37  Identities=24%  Similarity=0.324  Sum_probs=30.4

Q ss_pred             CCcceeCCCCCChHHHHHHHHHH---hCCcEEeecchhhc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHA---AEASFFSLSGAELY  361 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~---~~~~~~~~~~~~~~  361 (611)
                      .-++|.|+||+|||++|+.++..   .|..++.++...+.
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~D~~~   44 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIR   44 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECTHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECchHHH
Confidence            35889999999999999999998   68888766665544

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.75  E-value=0.0013  Score=60.45  Aligned_cols=31  Identities=29%  Similarity=0.522  Sum_probs=27.2

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      +..|+|.|+||+||||+++.+++.++..++.
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~~i~   36 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFGWVHLS   36 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEee
Confidence            4679999999999999999999999866543

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=96.75  E-value=0.0012  Score=71.99  Aligned_cols=32  Identities=34%  Similarity=0.535  Sum_probs=25.6

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVI   84 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v   84 (611)
                      ...+++.||||||||+++.+++..+   +..+..+
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~  238 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLC  238 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEe
Confidence            3689999999999999999998755   5555444

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.74  E-value=0.0012  Score=61.81  Aligned_cols=34  Identities=32%  Similarity=0.545  Sum_probs=28.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH   90 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~   90 (611)
                      .|+|.||||+||+|.++.+++.++.+.  ++..++.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g~~~--istGdll   35 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKGFVH--ISTGDIL   35 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCEE--EEHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCeE--EcHHHHH
Confidence            588999999999999999999998764  5544443

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.74  E-value=0.0013  Score=64.04  Aligned_cols=70  Identities=20%  Similarity=0.308  Sum_probs=42.3

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhC----CcEEeecchhh---c--------cccccchHHHHHHHHHHHHhcCCcE
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAE----ASFFSLSGAEL---Y--------SMYVGESEALLRNTFQRARLAAPSI  386 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~----~~~~~~~~~~~---~--------~~~~g~~~~~~~~~~~~a~~~~p~i  386 (611)
                      .+..-+++.||+|+||||+.++++....    ..++ +...++   .        ....|.....++..+..+-...|.+
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~-~~g~~i~~~~~~~~~~v~q~~~gl~~~~l~~~la~aL~~~p~i  101 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHII-TIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPDV  101 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEE-EEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHHHHCCSE
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEE-EcCCcceeecCCcceeeeHHHhCCCHHHHHHHHHHHHhhCCCE
Confidence            4455688999999999999999998752    2222 211111   0        0001111122344555555568999


Q ss_pred             EEEccc
Q 007255          387 IFFDEA  392 (611)
Q Consensus       387 l~iDei  392 (611)
                      +++||.
T Consensus       102 lllDEp  107 (261)
T 2eyu_A          102 IFVGEM  107 (261)
T ss_dssp             EEESCC
T ss_pred             EEeCCC
Confidence            999997

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.74  E-value=0.00072  Score=61.13  Aligned_cols=30  Identities=27%  Similarity=0.445  Sum_probs=27.0

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      .++|.|+||+|||++++.+|..++.+++..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id~   33 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARALGYEFVDT   33 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEcc
Confidence            488999999999999999999999887653

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.74  E-value=0.0011  Score=62.42  Aligned_cols=30  Identities=30%  Similarity=0.472  Sum_probs=26.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      .|+|.||||+||||+++.+++.++..++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKYGIPHIST   31 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            588999999999999999999998776544

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=96.73  E-value=0.0093  Score=56.02  Aligned_cols=34  Identities=21%  Similarity=0.224  Sum_probs=26.4

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~   86 (611)
                      ..++++.|+||+||||++-.+|..+   |..++.+..
T Consensus         6 ~l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~   42 (228)
T 2r8r_A            6 RLKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVV   42 (228)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEe
Confidence            3679999999999999998888765   555544443

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.73  E-value=0.0013  Score=61.35  Aligned_cols=32  Identities=19%  Similarity=0.304  Sum_probs=27.6

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .+..|+|.|+||+||||+++.+++.++..++.
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~   45 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDYSFVHLS   45 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHSSCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcCceEEe
Confidence            34679999999999999999999999876554

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.73  E-value=0.0018  Score=65.87  Aligned_cols=79  Identities=27%  Similarity=0.426  Sum_probs=50.1

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccccc----c-----------cchHHHHHHHHHHHHh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH----V-----------GESEKALREAFSQASS  110 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~----~-----------~~~~~~l~~~f~~~~~  110 (611)
                      |+.+...++++||||+|||+++..++..+   +..++.++........    .           ......+........ 
T Consensus        59 Gl~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~-  137 (356)
T 1u94_A           59 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALA-  137 (356)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHH-
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHH-
Confidence            46677889999999999999999988654   5667777764321110    0           011122222222221 


Q ss_pred             hhhcCCCeEEEEccccccCC
Q 007255          111 HALSGKPSVVFIDEIDALCP  130 (611)
Q Consensus       111 ~~~~~~~~il~IDeid~l~~  130 (611)
                        ....+.+|+||.+..+.+
T Consensus       138 --~~~~~~lVVIDsl~~l~~  155 (356)
T 1u94_A          138 --RSGAVDVIVVDSVAALTP  155 (356)
T ss_dssp             --HHTCCSEEEEECGGGCCC
T ss_pred             --hccCCCEEEEcCHHHhcc
Confidence              123578999999988875

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.72  E-value=0.0014  Score=61.07  Aligned_cols=31  Identities=29%  Similarity=0.532  Sum_probs=26.7

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      ++..+.|.||+|+||||+++.++..+|..++
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~g~~~i   58 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADETGLEFA   58 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHCCEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhhCCeEE
Confidence            4578999999999999999999999975443

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.72  E-value=0.0014  Score=59.44  Aligned_cols=30  Identities=23%  Similarity=0.370  Sum_probs=26.2

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      +..++|+||+|+||||+++.++..+|..++
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~g~~~i   37 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQLHAAFL   37 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhhCcEEE
Confidence            467999999999999999999999876544

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=96.71  E-value=0.0016  Score=62.44  Aligned_cols=33  Identities=21%  Similarity=0.208  Sum_probs=27.9

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecch
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~  358 (611)
                      .++++||+|+|||.++.+++...+..++.+.+.
T Consensus       110 ~~ll~~~tG~GKT~~a~~~~~~~~~~~liv~P~  142 (237)
T 2fz4_A          110 RGCIVLPTGSGKTHVAMAAINELSTPTLIVVPT  142 (237)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEEESS
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHcCCCEEEEeCC
Confidence            489999999999999999998887777666554

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.71  E-value=0.0013  Score=62.02  Aligned_cols=30  Identities=20%  Similarity=0.416  Sum_probs=26.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      .|+|.||||+||||+++.+++.++..++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYEIPHIST   31 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEeeH
Confidence            588999999999999999999998776543

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.71  E-value=0.0013  Score=59.03  Aligned_cols=29  Identities=17%  Similarity=0.172  Sum_probs=26.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .|+|.|+||+||||+++.+++.++.+++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~~~~i~   30 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLNIPFYD   30 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHTCCEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEE
Confidence            58999999999999999999999977654

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.71  E-value=0.0008  Score=63.69  Aligned_cols=31  Identities=29%  Similarity=0.378  Sum_probs=27.4

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ..++|.|+||+||||+++.+|..++.+++..
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   35 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQERFHAAHLAT   35 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCceEEeh
Confidence            4588999999999999999999999877654

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=96.70  E-value=0.0029  Score=64.26  Aligned_cols=40  Identities=23%  Similarity=0.303  Sum_probs=32.1

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---------CCcEEEEcccc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---------GAHLTVISPHS   88 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---------~~~~~~v~~~~   88 (611)
                      |+.+..-++|+||||+|||+++..+|...         +...++++...
T Consensus       118 Gl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A          118 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            56677789999999999999999998862         45667776554

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.70  E-value=0.00077  Score=62.28  Aligned_cols=33  Identities=18%  Similarity=0.208  Sum_probs=28.3

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      +.-++|.|+||+|||++++.+|..++.+++..+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~d   41 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTG   41 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcHH
Confidence            346899999999999999999999998876543

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.69  E-value=0.00077  Score=60.86  Aligned_cols=29  Identities=28%  Similarity=0.411  Sum_probs=25.5

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      -++|.||||+|||++|+.+ ..+|.+++.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~g~~~i~~   31 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KERGAKVIVM   31 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHTTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCcEEEH
Confidence            3789999999999999999 8889887654

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.66  E-value=0.0012  Score=61.48  Aligned_cols=32  Identities=22%  Similarity=0.310  Sum_probs=27.8

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      +.-++|.|++|+|||++++.++..++..++..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg~~~i~~   49 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACGYPFIEG   49 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHTCCEEEG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCEEEeC
Confidence            34689999999999999999999998877654

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.66  E-value=0.0008  Score=62.05  Aligned_cols=31  Identities=19%  Similarity=0.191  Sum_probs=26.9

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      .-++|.|+||+|||++|+.++..++.+++..
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   34 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEKYGYTHLSA   34 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            4588999999999999999999999876543

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=96.66  E-value=0.018  Score=59.90  Aligned_cols=36  Identities=33%  Similarity=0.483  Sum_probs=28.9

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~   87 (611)
                      +|..++++|++|+||||++..+|..+   |..+..+++.
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D  137 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSD  137 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCC
Confidence            46789999999999999999998766   5556555544

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.65  E-value=0.00079  Score=61.70  Aligned_cols=31  Identities=29%  Similarity=0.399  Sum_probs=26.7

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ..++|.|+||+||||+++.+|..++.+++..
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l~~~~i~~   35 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQELGFKKLST   35 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTCEEECH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEecH
Confidence            3588999999999999999999998776543

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.65  E-value=0.0026  Score=63.46  Aligned_cols=33  Identities=33%  Similarity=0.437  Sum_probs=29.5

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~  357 (611)
                      ..++++||+|+|||+++..+|..++..++..+.
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~~~iis~Ds   38 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALPCELISVDS   38 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSCEEEEEECT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCcEEeccc
Confidence            358899999999999999999999988888754

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.65  E-value=0.0099  Score=61.87  Aligned_cols=36  Identities=22%  Similarity=0.369  Sum_probs=28.4

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~   87 (611)
                      ++..++++||+|+||||++..+|..+   +..+..+++.
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D  134 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAAD  134 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecC
Confidence            46789999999999999999998766   5555555543

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.64  E-value=0.0039  Score=62.40  Aligned_cols=35  Identities=23%  Similarity=0.280  Sum_probs=30.0

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~   87 (611)
                      ++.|+|+||+|+|||+++..+|+.++..++..+.-
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~Ds~   74 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFPLEVINSDKM   74 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSCEEEEECCSS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCCCcEEccccc
Confidence            45799999999999999999999999877665543

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.64  E-value=0.0017  Score=59.08  Aligned_cols=35  Identities=23%  Similarity=0.221  Sum_probs=30.3

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~   86 (611)
                      .+..+.|.|++|+||||+++.++..+   |.+++.++.
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d~   41 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDG   41 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEECC
Confidence            45689999999999999999999988   888877664

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.64  E-value=0.0023  Score=67.69  Aligned_cols=37  Identities=19%  Similarity=0.228  Sum_probs=28.9

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh----CCcEEeec
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLS  356 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~  356 (611)
                      |+++..-+++.|+||+|||+++..+|...    |.++..++
T Consensus       199 Gl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s  239 (454)
T 2r6a_A          199 GFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFS  239 (454)
T ss_dssp             SBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEE
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEE
Confidence            66777778999999999999999988754    44555444

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.63  E-value=0.0065  Score=64.23  Aligned_cols=38  Identities=16%  Similarity=0.384  Sum_probs=31.0

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEcc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC----GAHLTVISP   86 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l----~~~~~~v~~   86 (611)
                      |+.+..-+++.|+||+|||+++..+|..+    |.++..++.
T Consensus       199 Gl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~  240 (454)
T 2r6a_A          199 GFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSL  240 (454)
T ss_dssp             SBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEES
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEEC
Confidence            67788889999999999999999987654    446666664

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.63  E-value=0.0017  Score=59.58  Aligned_cols=28  Identities=32%  Similarity=0.685  Sum_probs=24.4

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~   81 (611)
                      ++|+|+||+|+|||||++.+.+.....+
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~~~~   29 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCCCe
Confidence            5799999999999999999998875544

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.62  E-value=0.00078  Score=63.65  Aligned_cols=31  Identities=23%  Similarity=0.297  Sum_probs=27.4

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ..++|.|+||+|||++++.+|..++.+++..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            3588999999999999999999999887654

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.61  E-value=0.0011  Score=62.34  Aligned_cols=40  Identities=20%  Similarity=0.316  Sum_probs=31.5

Q ss_pred             CCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          321 ISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       321 ~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ...++-++|.||||+||+|.|+.||..++.+.  ++.++++.
T Consensus        26 ~~k~kiI~llGpPGsGKgTqa~~L~~~~g~~h--IstGdllR   65 (217)
T 3umf_A           26 LAKAKVIFVLGGPGSGKGTQCEKLVQKFHFNH--LSSGDLLR   65 (217)
T ss_dssp             TTSCEEEEEECCTTCCHHHHHHHHHHHHCCEE--ECHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHCCce--EcHHHHHH
Confidence            34456688999999999999999999998665  55555553

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.61  E-value=0.00082  Score=63.95  Aligned_cols=32  Identities=25%  Similarity=0.353  Sum_probs=27.8

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      +..++|.||||+|||++++.+|..++..++..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   38 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHFELKHLSS   38 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHSSSEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCeEEec
Confidence            34689999999999999999999999877654

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=96.61  E-value=0.0076  Score=64.04  Aligned_cols=75  Identities=20%  Similarity=0.307  Sum_probs=48.9

Q ss_pred             Cc-EEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCc--ccchhccCCCCccceeecCC
Q 007255          384 PS-IIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPH--AIDAALMRPGRFDLVLYVPP  460 (611)
Q Consensus       384 p~-il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~--~ld~al~r~gRf~~~i~~~~  460 (611)
                      |. +++|||...+....          ... ...++..+-.....-++.+|.+|.+|.  .++..++.  .|...|.|..
T Consensus       297 P~ivlvIDE~~~ll~~~----------~~~-~~~~l~~Lar~gRa~GI~LIlaTQrp~~dvl~~~i~~--n~~~RI~lrv  363 (512)
T 2ius_A          297 PYIVVLVDEFADLMMTV----------GKK-VEELIARLAQKARAAGIHLVLATQRPSVDVITGLIKA--NIPTRIAFTV  363 (512)
T ss_dssp             CEEEEEEETHHHHHHHH----------HHH-HHHHHHHHHHHCGGGTEEEEEEESCCCTTTSCHHHHH--HCCEEEEECC
T ss_pred             CcEEEEEeCHHHHHhhh----------hHH-HHHHHHHHHHHhhhCCcEEEEEecCCccccccHHHHh--hcCCeEEEEc
Confidence            44 89999998775310          111 222333222112334688888999987  47776665  6777888888


Q ss_pred             CCHHHHHHHHH
Q 007255          461 PDLEARHEILR  471 (611)
Q Consensus       461 p~~~~r~~il~  471 (611)
                      .+..+...|+.
T Consensus       364 ~s~~dsr~ilg  374 (512)
T 2ius_A          364 SSKIDSRTILD  374 (512)
T ss_dssp             SSHHHHHHHHS
T ss_pred             CCHHHHHHhcC
Confidence            99988888876

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.61  E-value=0.001  Score=59.75  Aligned_cols=29  Identities=17%  Similarity=0.273  Sum_probs=26.3

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ++|.|+||+|||++++.++..++.+++..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~l~~~~i~~   31 (168)
T 2pt5_A            3 IYLIGFMCSGKSTVGSLLSRSLNIPFYDV   31 (168)
T ss_dssp             EEEESCTTSCHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            78999999999999999999999887654

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.59  E-value=0.00099  Score=62.76  Aligned_cols=29  Identities=24%  Similarity=0.283  Sum_probs=26.0

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ++|.||||+|||++|+.+|..++..++..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3dl0_A            3 LVLMGLPGAGKGTQGERIVEKYGIPHIST   31 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            78999999999999999999998877654

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.59  E-value=0.00063  Score=61.66  Aligned_cols=22  Identities=32%  Similarity=0.451  Sum_probs=18.2

Q ss_pred             CCCCCcceeCCCCCChHHHHHH
Q 007255          322 SPVRGALLHGPPGCSKTTLAKA  343 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~a  343 (611)
                      .++.-+.|.||+|+|||+++++
T Consensus         7 ~~gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            7 PELSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             ESSEEEEEECCTTSCHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHH
Confidence            3444578999999999999994

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=96.59  E-value=0.013  Score=57.41  Aligned_cols=29  Identities=21%  Similarity=0.200  Sum_probs=24.8

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      |+.....++|+||+|+|||+++..++..+
T Consensus        26 gl~~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           26 NMVAGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CccCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            55666789999999999999999988644

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.57  E-value=0.0012  Score=66.63  Aligned_cols=31  Identities=23%  Similarity=0.480  Sum_probs=27.4

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      .+++|+||||+|||++++++|..++.+|+.+
T Consensus        25 ~~i~l~G~~G~GKTTl~~~la~~l~~~f~~l   55 (359)
T 2ga8_A           25 VCVILVGSPGSGKSTIAEELCQIINEKYHTF   55 (359)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhCCCeeee
Confidence            3589999999999999999999998888553

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=96.57  E-value=0.0078  Score=61.16  Aligned_cols=29  Identities=24%  Similarity=0.354  Sum_probs=25.8

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      |+++..-+.|+||||+|||++++.++...
T Consensus       127 gi~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          127 GIETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            56667789999999999999999999876

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.57  E-value=0.0011  Score=62.47  Aligned_cols=29  Identities=31%  Similarity=0.354  Sum_probs=26.0

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ++|.||||+|||++|+.+|..++..++..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3fb4_A            3 IVLMGLPGAGKGTQAEQIIEKYEIPHIST   31 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEeeH
Confidence            68999999999999999999999877654

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.57  E-value=0.0012  Score=63.18  Aligned_cols=31  Identities=32%  Similarity=0.379  Sum_probs=27.5

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ..++|.|+||+|||++|+.+|..++..++..
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   47 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   47 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCceecH
Confidence            4589999999999999999999999877654

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=96.56  E-value=0.01  Score=61.37  Aligned_cols=40  Identities=23%  Similarity=0.321  Sum_probs=30.0

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---------CCcEEEEcccc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---------GAHLTVISPHS   88 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---------~~~~~~v~~~~   88 (611)
                      |+.+..-++|+||||+|||+++..++-..         +...++++...
T Consensus       174 GI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~  222 (400)
T 3lda_A          174 GVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEG  222 (400)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             CcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCC
Confidence            66777889999999999999999776432         23466666543

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.56  E-value=0.0011  Score=60.95  Aligned_cols=31  Identities=19%  Similarity=0.177  Sum_probs=27.2

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      .-++|.|+||+|||++++.++..++.+++..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~~l~~~~i~~   37 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVRDFGWVHLSA   37 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEeeH
Confidence            4588999999999999999999999777654

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.56  E-value=0.0017  Score=61.07  Aligned_cols=30  Identities=20%  Similarity=0.390  Sum_probs=26.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      .|+|.|+||+||||+++.+++.++..++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g~~~i~~   31 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            589999999999999999999998776544

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.55  E-value=0.0038  Score=62.07  Aligned_cols=72  Identities=17%  Similarity=0.135  Sum_probs=44.0

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcc--------------------ccccchHHHHHHHHHH
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS--------------------MYVGESEALLRNTFQR  378 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~--------------------~~~g~~~~~~~~~~~~  378 (611)
                      .++.-+++.||+|+|||+++..+|..+   +..+..+.......                    ...++........+..
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~al~~  181 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAVAH  181 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEccccccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHH
Confidence            445668899999999999999999776   44444333211100                    0111222222334445


Q ss_pred             HHhcCCcEEEEcccc
Q 007255          379 ARLAAPSIIFFDEAD  393 (611)
Q Consensus       379 a~~~~p~il~iDeid  393 (611)
                      +....|++++||+.-
T Consensus       182 a~~~~~dvvIiDtpg  196 (306)
T 1vma_A          182 ALARNKDVVIIDTAG  196 (306)
T ss_dssp             HHHTTCSEEEEEECC
T ss_pred             HHhcCCCEEEEECCC
Confidence            566788999999874

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.55  E-value=0.00096  Score=63.22  Aligned_cols=32  Identities=16%  Similarity=0.198  Sum_probs=27.5

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      +..++|.||||+|||++++.+|..++..++.+
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~   36 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQLAHISA   36 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEECCH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceecH
Confidence            34689999999999999999999999766543

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.55  E-value=0.0017  Score=60.32  Aligned_cols=34  Identities=12%  Similarity=0.193  Sum_probs=28.5

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh-CCcEEEEc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC-GAHLTVIS   85 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l-~~~~~~v~   85 (611)
                      .+..|+|.|++|+||||+++.+++.+ |.+++.+.
T Consensus         3 ~~~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~~   37 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQCMNIMESIPANTIKYLN   37 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHTSCGGGEEEEE
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHCCCceEEEe
Confidence            35689999999999999999999998 46666543

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.55  E-value=0.001  Score=61.60  Aligned_cols=31  Identities=19%  Similarity=0.237  Sum_probs=27.0

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      .-++|.|+||+|||++|+.+|..++..++..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~   43 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKYGFTHLST   43 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            4588999999999999999999999776544

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.54  E-value=0.00071  Score=61.55  Aligned_cols=30  Identities=23%  Similarity=0.197  Sum_probs=24.1

Q ss_pred             CCcceeCCCCCChHHHHHHHHH-HhCCcEEe
Q 007255          325 RGALLHGPPGCSKTTLAKAAAH-AAEASFFS  354 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~-~~~~~~~~  354 (611)
                      .-++|.||||+|||++|+.++. ..+..++.
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~~~~~~~~i~   33 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYNIN   33 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEEEC
T ss_pred             eEEEEecCCCCCHHHHHHHHHhhcCCcEEec
Confidence            3478999999999999999998 45554443

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.53  E-value=0.00093  Score=61.41  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=22.8

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhC
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAE  349 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~  349 (611)
                      .-++|.||||+|||++++.++..++
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3578999999999999999999887

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.51  E-value=0.0014  Score=61.28  Aligned_cols=34  Identities=29%  Similarity=0.441  Sum_probs=28.1

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ++|.||||+||+|.|+.||..+|.+.  ++.++++.
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~g~~~--istGdllR   36 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEKGFVH--ISTGDILR   36 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEE--EEHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeE--EcHHHHHH
Confidence            67899999999999999999998765  45555543

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.51  E-value=0.0068  Score=60.26  Aligned_cols=36  Identities=22%  Similarity=0.361  Sum_probs=28.0

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~   86 (611)
                      ..+..++++||+|+||||++..+|..+   +..+..+++
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~  140 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAA  140 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEcc
Confidence            356789999999999999999998766   445554443

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.50  E-value=0.0019  Score=59.93  Aligned_cols=28  Identities=18%  Similarity=0.529  Sum_probs=25.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      .|+|.|++|+||||+++.+++.++..++
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~~~~   29 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGYEIF   29 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCCEEE
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCCcEE
Confidence            5889999999999999999999998654

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.50  E-value=0.00094  Score=68.29  Aligned_cols=27  Identities=30%  Similarity=0.460  Sum_probs=22.5

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .+..-+.|.||+||||||+.+++|...
T Consensus        27 ~~Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           27 HEGEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCCEEEEEcCCCchHHHHHHHHHcCC
Confidence            344457899999999999999999755

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.50  E-value=0.0015  Score=59.29  Aligned_cols=31  Identities=29%  Similarity=0.418  Sum_probs=26.6

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      +..++|.||+|+|||++++.++..+|..++.
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~g~~~i~   38 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLD   38 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhhCcEEEe
Confidence            3458899999999999999999998876654

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.49  E-value=0.0011  Score=60.53  Aligned_cols=29  Identities=28%  Similarity=0.324  Sum_probs=22.5

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEE
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~  353 (611)
                      .-++|.|+||+|||++|+.++..++.+++
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~~l~~~~i   34 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHERLPGSFV   34 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHHHSTTCEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            45889999999999999999999998876

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=96.49  E-value=0.022  Score=65.08  Aligned_cols=43  Identities=21%  Similarity=0.179  Sum_probs=35.4

Q ss_pred             CCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHH
Q 007255           22 GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        22 ~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      +|.++.++.|.+.+...            ...+-+.++|+.|+|||++|+.+++.
T Consensus       131 VGRe~eLeeL~elL~~~------------d~~RVV~IvGmGGIGKTTLAk~Vy~d  173 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLEL------------RPAKNVLIDGVLGSGKTWVALDVCLS  173 (1221)
T ss_dssp             CCCHHHHHHHHHHHHHC------------CSSCEEEECCSTTSSHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHhcc------------CCCeEEEEEcCCCccHHHHHHHHHHh
Confidence            89999999999887431            12468999999999999999998853

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.48  E-value=0.0051  Score=59.76  Aligned_cols=28  Identities=21%  Similarity=0.410  Sum_probs=24.2

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      +.+...++|+||+|+||||+++.++..+
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             hCCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            3455789999999999999999998865

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.47  E-value=0.0013  Score=61.24  Aligned_cols=32  Identities=19%  Similarity=0.202  Sum_probs=27.4

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      .-++|.|+||+|||++++.++..++..++..+
T Consensus        16 ~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~~d   47 (203)
T 1ukz_A           16 SVIFVLGGPGAGKGTQCEKLVKDYSFVHLSAG   47 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSCEEEEHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCceEEeHH
Confidence            35789999999999999999999998776543

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.46  E-value=0.0017  Score=59.15  Aligned_cols=37  Identities=24%  Similarity=0.323  Sum_probs=31.1

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhh
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAEL  360 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~  360 (611)
                      +..+.|.|++|+|||++++.++..+   |.+++.++...+
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d~~~~   44 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNI   44 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEECChHH
Confidence            3457899999999999999999988   888887775544

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.46  E-value=0.006  Score=57.70  Aligned_cols=29  Identities=24%  Similarity=0.354  Sum_probs=25.4

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      |+.+..-+.|+||+|+||||+++.++..+
T Consensus        21 gi~~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           21 GIETQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            56677889999999999999999999854

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.46  E-value=0.0013  Score=63.26  Aligned_cols=33  Identities=21%  Similarity=0.241  Sum_probs=28.1

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ++..++|.||||+|||++|+.++..++..++..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~   60 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSHCYCHLST   60 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            445689999999999999999999998776544

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.46  E-value=0.0023  Score=60.73  Aligned_cols=28  Identities=25%  Similarity=0.464  Sum_probs=25.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      .|+|.|+||+||||+++.+++.++..++
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg~~~i   29 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYSLAHI   29 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            5899999999999999999999986544

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.45  E-value=0.0056  Score=64.52  Aligned_cols=38  Identities=21%  Similarity=0.162  Sum_probs=29.2

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh----CCcEEeecc
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSG  357 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~~  357 (611)
                      |+++..-+++.|+||+|||++|..+|...    +.+++.++.
T Consensus       196 Gl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~sl  237 (444)
T 2q6t_A          196 TLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSL  237 (444)
T ss_dssp             CCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEES
T ss_pred             CcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEC
Confidence            67777778999999999999999888654    445555443

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.44  E-value=0.0018  Score=60.30  Aligned_cols=32  Identities=31%  Similarity=0.487  Sum_probs=26.8

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      ++.-+.|.||+|+|||++++.++..+|..++.
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~g~~~i~   59 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADETGLEFAE   59 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhhCCeEEc
Confidence            34568899999999999999999999766543

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.41  E-value=0.0027  Score=58.34  Aligned_cols=31  Identities=19%  Similarity=0.301  Sum_probs=27.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEc
Q 007255           55 GLLLYGPPGTGKTSLVRAVVREC---GAHLTVIS   85 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~   85 (611)
                      .|+|.|++|+||||+++.+++.+   |.+++..+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~d   35 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYR   35 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            58899999999999999999988   77776553

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.41  E-value=0.0014  Score=60.22  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=22.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      .|+|.|+||+||||+++.+++.++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999999886

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.40  E-value=0.017  Score=57.15  Aligned_cols=26  Identities=27%  Similarity=0.280  Sum_probs=22.4

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .+..++|.||+|+|||+++..+|..+
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAIS  129 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            35568899999999999999999765

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.39  E-value=0.0026  Score=60.20  Aligned_cols=30  Identities=30%  Similarity=0.483  Sum_probs=26.5

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      +..+.|.||+|+||||+++.+++.++.+++
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~~g~~~~   34 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEALQWHLL   34 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHTCEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCcc
Confidence            357999999999999999999999997654

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.38  E-value=0.0028  Score=60.22  Aligned_cols=32  Identities=34%  Similarity=0.460  Sum_probs=27.4

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .+..+.|.||+|+||||+++.+++.++..++.
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~~lg~~~~d   39 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLARALGARYLD   39 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            35689999999999999999999999976543

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.38  E-value=0.0032  Score=58.48  Aligned_cols=35  Identities=20%  Similarity=0.266  Sum_probs=27.8

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEc
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVIS   85 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~   85 (611)
                      .++..+.|.||+|+||||+++.++..+   |...+.++
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d   60 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILD   60 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEec
Confidence            356789999999999999999999988   44433444

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.38  E-value=0.009  Score=59.82  Aligned_cols=37  Identities=22%  Similarity=0.164  Sum_probs=28.7

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeec
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLS  356 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~  356 (611)
                      |+++..-+++.|+||+|||+++..+|...   +.++..++
T Consensus        64 Gl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~s  103 (315)
T 3bh0_A           64 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  103 (315)
T ss_dssp             SBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEE
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            67777779999999999999999998654   34444443

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=96.35  E-value=0.0083  Score=55.70  Aligned_cols=19  Identities=16%  Similarity=0.120  Sum_probs=16.0

Q ss_pred             CCcceeCCCCCChHHHHHH
Q 007255          325 RGALLHGPPGCSKTTLAKA  343 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~a  343 (611)
                      +.+++.+|+|+|||..+-.
T Consensus        39 ~~~li~~~TGsGKT~~~~~   57 (207)
T 2gxq_A           39 KDLIGQARTGTGKTLAFAL   57 (207)
T ss_dssp             CCEEEECCTTSCHHHHHHH
T ss_pred             CCEEEECCCCChHHHHHHH
Confidence            5799999999999987443

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.35  E-value=0.0024  Score=59.73  Aligned_cols=28  Identities=18%  Similarity=0.096  Sum_probs=25.2

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAH   80 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~   80 (611)
                      +..|+|.|+||+||||+++.+++.++..
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            4679999999999999999999998763

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.35  E-value=0.0026  Score=61.29  Aligned_cols=30  Identities=23%  Similarity=0.520  Sum_probs=26.7

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~   81 (611)
                      .+..++|.||+|+||||+++.+++.+|...
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~lg~~~   55 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNFGLQH   55 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHCCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCeE
Confidence            357899999999999999999999998654

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.35  E-value=0.0095  Score=62.76  Aligned_cols=38  Identities=18%  Similarity=0.233  Sum_probs=30.8

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEcc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC----GAHLTVISP   86 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l----~~~~~~v~~   86 (611)
                      |+.+..-+++.|+||+|||+++..+|...    +.+++.++.
T Consensus       196 Gl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~sl  237 (444)
T 2q6t_A          196 TLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSL  237 (444)
T ss_dssp             CCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEES
T ss_pred             CcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEC
Confidence            67787889999999999999999887654    456666654

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.34  E-value=0.024  Score=56.61  Aligned_cols=39  Identities=21%  Similarity=0.255  Sum_probs=31.1

Q ss_pred             cCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 007255           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (611)
Q Consensus        48 ~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~   86 (611)
                      .|+.+..-+++.|+||+|||+++..+|...   +.+.+.++.
T Consensus        63 gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~sl  104 (315)
T 3bh0_A           63 YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSL  104 (315)
T ss_dssp             SSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEES
T ss_pred             CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEEC
Confidence            367788889999999999999999988654   345666654

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=96.34  E-value=0.0028  Score=62.49  Aligned_cols=38  Identities=24%  Similarity=0.474  Sum_probs=31.5

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~   89 (611)
                      .+.-++++||+|+|||+++..+|+.++..++..+.-++
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~qv   46 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKILPVELISVDSALI   46 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHSCEEEEECCTTTT
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhCCCcEEecccccc
Confidence            34678999999999999999999999987776655444

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.32  E-value=0.0017  Score=61.16  Aligned_cols=29  Identities=24%  Similarity=0.177  Sum_probs=26.2

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ++|.||||+|||++++.+|..++..++..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~g~~~i~~   31 (214)
T 1e4v_A            3 IILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            78999999999999999999999877655

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.29  E-value=0.0016  Score=63.53  Aligned_cols=27  Identities=22%  Similarity=0.267  Sum_probs=22.4

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .+..-+.|.||+|+|||||+++++...
T Consensus        35 ~~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           35 ASGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             ETTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            444557899999999999999999654

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.28  E-value=0.0027  Score=57.88  Aligned_cols=27  Identities=19%  Similarity=0.443  Sum_probs=23.8

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      ....+.|+||+|+||||+++.++..+.
T Consensus         4 ~g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            346799999999999999999998764

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=96.28  E-value=0.0016  Score=66.07  Aligned_cols=112  Identities=24%  Similarity=0.282  Sum_probs=0.0

Q ss_pred             hcCCCCCCCcceeCCCCCChHHHHHHHH----------------------------------------------------
Q 007255          318 RLGISPVRGALLHGPPGCSKTTLAKAAA----------------------------------------------------  345 (611)
Q Consensus       318 ~~~~~~~~~~Ll~Gp~G~GKT~la~ala----------------------------------------------------  345 (611)
                      .+.+.+..-+.|.||+||||||+.+++|                                                    
T Consensus        24 sl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G~I~i~G~~i~~~~~~~~~~~r~ig~vfQ~~~l~p~ltV~eni~~  103 (359)
T 3fvq_A           24 SLSLDPGEILFIIGASGCGKTTLLRCLAGFEQPDSGEISLSGKTIFSKNTNLPVRERRLGYLVQEGVLFPHLTVYRNIAY  103 (359)
T ss_dssp             EEEECTTCEEEEEESTTSSHHHHHHHHHTSSCCSEEEEEETTEEEESSSCBCCGGGSCCEEECTTCCCCTTSCHHHHHHT
T ss_pred             EEEEcCCCEEEEECCCCchHHHHHHHHhcCCCCCCcEEEECCEECcccccccchhhCCEEEEeCCCcCCCCCCHHHHHHH


Q ss_pred             -------------HHhCCcEEeecchhhccccccchHHHHHHHHHHHHh--cCCcEEEEcccccccccCCCCCCCCcchh
Q 007255          346 -------------HAAEASFFSLSGAELYSMYVGESEALLRNTFQRARL--AAPSIIFFDEADVVGAKRGGSSSTSITVG  410 (611)
Q Consensus       346 -------------~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~--~~p~il~iDeid~l~~~~~~~~~~~~~~~  410 (611)
                                   .....-+-.+...++..++..+...-.++-...|+.  ..|.+|++||             ......
T Consensus       104 ~l~~~~~~~~~~~~~v~~~l~~~gL~~~~~r~~~~LSGGq~QRValArAL~~~P~lLLLDE-------------Pts~LD  170 (359)
T 3fvq_A          104 GLGNGKGRTAQERQRIEAMLELTGISELAGRYPHELSGGQQQRAALARALAPDPELILLDE-------------PFSALD  170 (359)
T ss_dssp             TSTTSSCCSHHHHHHHHHHHHHHTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEES-------------TTTTSC
T ss_pred             HHHHcCCChHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEeC-------------CcccCC


Q ss_pred             HHHHHHHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          411 ERLLSTLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       411 ~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      ......+...+..+....+..+|.+|...+++
T Consensus       171 ~~~r~~l~~~l~~~~~~~g~tvi~vTHd~~ea  202 (359)
T 3fvq_A          171 EQLRRQIREDMIAALRANGKSAVFVSHDREEA  202 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEECCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHH

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.26  E-value=0.0026  Score=59.26  Aligned_cols=29  Identities=31%  Similarity=0.554  Sum_probs=25.5

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCC
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGA   79 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~   79 (611)
                      ..+..++|+||||+||||+++.+++.++.
T Consensus        10 ~~~~~i~l~G~sGsGKsTl~~~L~~~~~~   38 (204)
T 2qor_A           10 ARIPPLVVCGPSGVGKGTLIKKVLSEFPS   38 (204)
T ss_dssp             CCCCCEEEECCTTSCHHHHHHHHHHHCTT
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHhCcc
Confidence            45678999999999999999999998853

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.25  E-value=0.0032  Score=60.75  Aligned_cols=32  Identities=28%  Similarity=0.400  Sum_probs=28.6

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      ...+.|.|++|+||||+++.+|+.++..++..
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg~~~~d~   79 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLGYTFFDC   79 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCcEEeC
Confidence            46899999999999999999999999876653

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.25  E-value=0.0023  Score=65.72  Aligned_cols=74  Identities=18%  Similarity=0.258  Sum_probs=43.7

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHhC----CcEEeecc-hhhc-c---ccccc-----hHHHHHHHHHHHHhcCCc
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAE----ASFFSLSG-AELY-S---MYVGE-----SEALLRNTFQRARLAAPS  385 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~----~~~~~~~~-~~~~-~---~~~g~-----~~~~~~~~~~~a~~~~p~  385 (611)
                      ...+...+++.||+|+||||++++++..+.    ..++.+.. .++. .   .++.+     ....+...+..+-...|+
T Consensus       132 ~~~~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~~~~~~~~~v~Q~~~g~~~~~~~~~l~~~L~~~pd  211 (372)
T 2ewv_A          132 CHRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPD  211 (372)
T ss_dssp             TTSSSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCSHHHHHHHTTSCCS
T ss_pred             hhcCCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhhhhccCceEEEeeecCCCHHHHHHHHHHHhhhCcC
Confidence            345556689999999999999999998762    33332221 1110 0   01111     111223344444456899


Q ss_pred             EEEEcccc
Q 007255          386 IIFFDEAD  393 (611)
Q Consensus       386 il~iDeid  393 (611)
                      +|++||+-
T Consensus       212 ~illdE~~  219 (372)
T 2ewv_A          212 VIFVGEMR  219 (372)
T ss_dssp             EEEESCCC
T ss_pred             EEEECCCC
Confidence            99999983

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.24  E-value=0.0027  Score=59.05  Aligned_cols=39  Identities=23%  Similarity=0.227  Sum_probs=29.6

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAEL  360 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~  360 (611)
                      .++.-+.|.||+|+|||++++++|..+   |...+.++..++
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d~d~~   64 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILDGDNV   64 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEecCchh
Confidence            344568899999999999999999988   544345555544

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.22  E-value=0.0025  Score=59.29  Aligned_cols=29  Identities=24%  Similarity=0.287  Sum_probs=25.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      .|.|.|++|+||||+++.+++ +|.+++..
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~g~~~i~~   31 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-LGAYVLDA   31 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-TTCEEEEH
T ss_pred             EEEEECCCCcCHHHHHHHHHH-CCCEEEEc
Confidence            588999999999999999999 88665543

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.18  E-value=0.0027  Score=60.15  Aligned_cols=29  Identities=21%  Similarity=0.300  Sum_probs=25.5

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ++|.||||+||||+++.++..++.+++..
T Consensus         3 I~l~G~~GsGKsT~a~~La~~lg~~~i~~   31 (223)
T 2xb4_A            3 ILIFGPNGSGKGTQGNLVKDKYSLAHIES   31 (223)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeEEch
Confidence            68999999999999999999998766543

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=96.17  E-value=0.0055  Score=67.25  Aligned_cols=24  Identities=33%  Similarity=0.404  Sum_probs=19.7

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +.+++.||||||||+++..+...+
T Consensus       165 ~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          165 RISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHH
Confidence            458999999999999888776544

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.17  E-value=0.0021  Score=59.04  Aligned_cols=24  Identities=21%  Similarity=0.372  Sum_probs=22.0

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhC
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAE  349 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~  349 (611)
                      -++|.|+||+|||++++.++..++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            378999999999999999999886

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.17  E-value=0.0028  Score=61.14  Aligned_cols=33  Identities=33%  Similarity=0.396  Sum_probs=29.1

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      ...+.|.||+|+|||++++.+|..++.+++..+
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg~~~~d~d   80 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLGYTFFDCD   80 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCcEEeCc
Confidence            456999999999999999999999999887643

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=96.16  E-value=0.0072  Score=68.19  Aligned_cols=60  Identities=15%  Similarity=0.069  Sum_probs=33.5

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChh-HHhhcCCCCCCCcceeCCCCCChHHHHHHHHHH
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHST-AFSRLGISPVRGALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~-~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      ..|+++.-.+.+.+.+.+.-..|..... .+.. .+.....+++.||+|+|||+++..+...
T Consensus        72 ~~f~~~~l~~~~~~~l~~r~~lP~~~q~~~i~~-~l~~~~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A           72 NPFTGREFTPKYVDILKIRRELPVHAQRDEFLK-LYQNNQIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             CTTTCSBCCHHHHHHHHHHTTSGGGGGHHHHHH-HHHHCSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCccccCCCHHHHHHHHHhhcCChHHHHHHHHH-HHhCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3466655555555555544444432211 1111 1122346899999999999977766544

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.15  E-value=0.0032  Score=57.91  Aligned_cols=30  Identities=23%  Similarity=0.062  Sum_probs=26.8

Q ss_pred             cceeCCCCCChHHHHHHHHHHh---CCcEEeec
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAA---EASFFSLS  356 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~  356 (611)
                      +.|.|+||+|||++++.++..+   |.+++..+
T Consensus         3 I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~d   35 (195)
T 2pbr_A            3 IAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYR   35 (195)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            6799999999999999999988   88887664

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.13  E-value=0.0037  Score=61.74  Aligned_cols=37  Identities=16%  Similarity=0.236  Sum_probs=29.8

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~   89 (611)
                      +.-+++.||+|+|||+++..+|+.++..++..+.-++
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~Qv   39 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRLNGEVISGDSMQV   39 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTTEEEEECCGGGG
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhCccceeecCcccc
Confidence            3568899999999999999999999876665554433

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.12  E-value=0.0029  Score=59.19  Aligned_cols=29  Identities=14%  Similarity=0.155  Sum_probs=25.3

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAH   80 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~   80 (611)
                      .+..|+|.|++|+||||+++.+++.++..
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~l~~~   37 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEYLKNN   37 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            45789999999999999999999987543

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.12  E-value=0.0029  Score=58.69  Aligned_cols=28  Identities=18%  Similarity=0.339  Sum_probs=25.4

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      +.|.|++|+||||+++.+|..++..++.
T Consensus         3 I~i~G~~GsGKsT~~~~L~~~l~~~~~~   30 (205)
T 2jaq_A            3 IAIFGTVGAGKSTISAEISKKLGYEIFK   30 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHCCEEEC
T ss_pred             EEEECCCccCHHHHHHHHHHhcCCcEEc
Confidence            6799999999999999999999987654

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.12  E-value=0.0031  Score=59.75  Aligned_cols=29  Identities=34%  Similarity=0.464  Sum_probs=25.8

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      .+.|.||+|+||||+++.++..++.+++.
T Consensus         7 ~i~i~G~~GsGKSTl~~~L~~~~g~~~~d   35 (227)
T 1cke_A            7 VITIDGPSGAGKGTLCKAMAEALQWHLLD   35 (227)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            47899999999999999999999977654

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.11  E-value=0.0051  Score=59.45  Aligned_cols=40  Identities=23%  Similarity=0.331  Sum_probs=32.3

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCc--------EEEEccccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAH--------LTVISPHSVHK   91 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~--------~~~v~~~~~~~   91 (611)
                      .+..|.|.|++|+||||+++.+++.++.+        ...++..++..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~~~   68 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFYR   68 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGGBC
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCcccc
Confidence            45679999999999999999999998865        44566666543

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.09  E-value=0.0019  Score=65.54  Aligned_cols=111  Identities=18%  Similarity=0.204  Sum_probs=0.0

Q ss_pred             cCCCCCCCcceeCCCCCChHHHHHHHH-----------------------------------------------------
Q 007255          319 LGISPVRGALLHGPPGCSKTTLAKAAA-----------------------------------------------------  345 (611)
Q Consensus       319 ~~~~~~~~~Ll~Gp~G~GKT~la~ala-----------------------------------------------------  345 (611)
                      +.+.+..-+.|.||+|||||||.+++|                                                     
T Consensus        36 l~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni~~~l~~~  115 (355)
T 1z47_A           36 FQIREGEMVGLLGPSGSGKTTILRLIAGLERPTKGDVWIGGKRVTDLPPQKRNVGLVFQNYALFQHMTVYDNVSFGLREK  115 (355)
T ss_dssp             EEEETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTCCGGGSSEEEECGGGCCCTTSCHHHHHHHHHHHT
T ss_pred             EEECCCCEEEEECCCCCcHHHHHHHHhCCCCCCccEEEECCEECCcCChhhCcEEEEecCcccCCCCCHHHHHHHHHHHc


Q ss_pred             --------HHhCCcEEeecchhhccccccchHHHHHHHHHHHHh--cCCcEEEEcccccccccCCCCCCCCcchhHHHHH
Q 007255          346 --------HAAEASFFSLSGAELYSMYVGESEALLRNTFQRARL--AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLS  415 (611)
Q Consensus       346 --------~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~--~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~  415 (611)
                              .....-+-.+...++..++..+...--++-...|+.  ..|.++++||             ...........
T Consensus       116 ~~~~~~~~~~v~~~l~~~gL~~~~~r~~~~LSGGq~QRvalArAL~~~P~lLLLDE-------------P~s~LD~~~r~  182 (355)
T 1z47_A          116 RVPKDEMDARVRELLRFMRLESYANRFPHELSGGQQQRVALARALAPRPQVLLFDE-------------PFAAIDTQIRR  182 (355)
T ss_dssp             TCCHHHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEES-------------TTCCSSHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCChhHhcCCcccCCHHHHHHHHHHHHHHcCCCEEEEeC-------------CcccCCHHHHH


Q ss_pred             HHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          416 TLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       416 ~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      .+...+..+....+..+|.+|...+++
T Consensus       183 ~l~~~l~~l~~~~g~tvi~vTHd~~~a  209 (355)
T 1z47_A          183 ELRTFVRQVHDEMGVTSVFVTHDQEEA  209 (355)
T ss_dssp             HHHHHHHHHHHHHTCEEEEECSCHHHH
T ss_pred             HHHHHHHHHHHhcCCEEEEECCCHHHH

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=96.08  E-value=0.0043  Score=57.25  Aligned_cols=30  Identities=27%  Similarity=0.398  Sum_probs=26.3

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ..|.|.|++||||||+++.+++.+|.+++.
T Consensus        13 ~iIgltG~~GSGKSTva~~L~~~lg~~vid   42 (192)
T 2grj_A           13 MVIGVTGKIGTGKSTVCEILKNKYGAHVVN   42 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCEEEE
Confidence            468899999999999999999998877554

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.08  E-value=0.0031  Score=59.08  Aligned_cols=27  Identities=22%  Similarity=0.224  Sum_probs=24.4

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      .+..|+|.|++|+||||+++.+++.++
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l~   34 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEALC   34 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            457899999999999999999999874

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.07  E-value=0.0031  Score=58.53  Aligned_cols=32  Identities=16%  Similarity=0.084  Sum_probs=27.1

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh-CCcEEeec
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA-EASFFSLS  356 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~-~~~~~~~~  356 (611)
                      .-+.|.|++|+||||+++.++..+ |.+++.+.
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~~   37 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESIPANTIKYLN   37 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTSCGGGEEEEE
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHCCCceEEEe
Confidence            458899999999999999999998 57776554

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.05  E-value=0.0038  Score=58.15  Aligned_cols=29  Identities=28%  Similarity=0.283  Sum_probs=24.7

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ..+.|.||+|+||||+++.++. +|..++.
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~-lg~~~id   31 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD-LGVPLVD   31 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT-TTCCEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHH-CCCcccc
Confidence            3688999999999999999988 7776553

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.05  E-value=0.0054  Score=57.03  Aligned_cols=29  Identities=28%  Similarity=0.424  Sum_probs=26.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .|.|.|++|+||||+++.+++.++.+++.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~d   32 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYLS   32 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceec
Confidence            78999999999999999999999977654

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.05  E-value=0.0022  Score=65.18  Aligned_cols=111  Identities=22%  Similarity=0.217  Sum_probs=0.0

Q ss_pred             cCCCCCCCcceeCCCCCChHHHHHHHH-----------------------------------------------------
Q 007255          319 LGISPVRGALLHGPPGCSKTTLAKAAA-----------------------------------------------------  345 (611)
Q Consensus       319 ~~~~~~~~~Ll~Gp~G~GKT~la~ala-----------------------------------------------------  345 (611)
                      +.+.+..-+.|.||+||||||+.+++|                                                     
T Consensus        24 l~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni~~~~~~~  103 (359)
T 2yyz_A           24 FEVKDGEFVALLGPSGCGKTTTLLMLAGIYKPTSGEIYFDDVLVNDIPPKYREVGMVFQNYALYPHMTVFENIAFPLRAR  103 (359)
T ss_dssp             EEECTTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCGGGTTEEEECSSCCCCTTSCHHHHHHGGGSSS
T ss_pred             EEEcCCCEEEEEcCCCchHHHHHHHHHCCCCCCccEEEECCEECCCCChhhCcEEEEecCcccCCCCCHHHHHHHHHHhc


Q ss_pred             --------HHhCCcEEeecchhhccccccchHHHHHHHHHHHHh--cCCcEEEEcccccccccCCCCCCCCcchhHHHHH
Q 007255          346 --------HAAEASFFSLSGAELYSMYVGESEALLRNTFQRARL--AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLS  415 (611)
Q Consensus       346 --------~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~--~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~  415 (611)
                              .....-+-.+...++..++.++-..--++-...|+.  ..|.++++||             ...........
T Consensus       104 ~~~~~~~~~~v~~~l~~~~L~~~~~r~~~~LSgGq~QRvalArAL~~~P~lLLLDE-------------P~s~LD~~~r~  170 (359)
T 2yyz_A          104 RISKDEVEKRVVEIARKLLIDNLLDRKPTQLSGGQQQRVALARALVKQPKVLLFDE-------------PLSNLDANLRM  170 (359)
T ss_dssp             CSHHHHTTHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEES-------------TTTTSCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEEC-------------CcccCCHHHHH


Q ss_pred             HHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          416 TLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       416 ~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      .+...+..+....+..+|.+|...+.+
T Consensus       171 ~l~~~l~~l~~~~g~tvi~vTHd~~~~  197 (359)
T 2yyz_A          171 IMRAEIKHLQQELGITSVYVTHDQAEA  197 (359)
T ss_dssp             HHHHHHHHHHHHHCCEEEEEESCHHHH
T ss_pred             HHHHHHHHHHHhcCCEEEEEcCCHHHH

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.04  E-value=0.0026  Score=59.15  Aligned_cols=30  Identities=27%  Similarity=0.326  Sum_probs=25.7

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      .+.|.|++|+|||++++.+|. +|.+++..+
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~g~~~i~~d   32 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-LGAYVLDAD   32 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-TTCEEEEHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH-CCCEEEEcc
Confidence            378999999999999999999 887776544

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.03  E-value=0.0048  Score=57.15  Aligned_cols=30  Identities=20%  Similarity=0.251  Sum_probs=25.9

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      .+..|.|.|++|+||||+++.+++. |..++
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~-g~~~i   36 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW-GYPVL   36 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT-TCCEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC-CCEEE
Confidence            3567999999999999999999998 76654

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.03  E-value=0.0039  Score=58.35  Aligned_cols=28  Identities=29%  Similarity=0.436  Sum_probs=24.7

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCC
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGA   79 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~   79 (611)
                      ++.-++|+||+|+||||+++.++..+..
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~~   34 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPET   34 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTTC
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCCC
Confidence            4567999999999999999999998754

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.03  E-value=0.0056  Score=59.17  Aligned_cols=30  Identities=27%  Similarity=0.432  Sum_probs=26.8

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      ...+.|.||+|+||||+++.+++.+|..++
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~Lg~~~~   56 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAESLNWRLL   56 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHTTCEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhcCCCcC
Confidence            457999999999999999999999997654

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.03  E-value=0.012  Score=56.24  Aligned_cols=38  Identities=26%  Similarity=0.384  Sum_probs=29.3

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHH----hCCcEEEEcc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE----CGAHLTVISP   86 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~----l~~~~~~v~~   86 (611)
                      |+.+..-++++|+||+|||+++..+|..    .+.+++.++.
T Consensus        26 Gl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~   67 (251)
T 2zts_A           26 GFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTL   67 (251)
T ss_dssp             SEETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecc
Confidence            5677788999999999999999877543    3556666654

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.03  E-value=0.0028  Score=64.42  Aligned_cols=27  Identities=19%  Similarity=0.156  Sum_probs=22.5

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .+..-+-|.||+|+|||||.++++...
T Consensus        52 ~~Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           52 PAGQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEEcCCCchHHHHHHHHhcCC
Confidence            444557899999999999999999654

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.02  E-value=0.0054  Score=57.45  Aligned_cols=39  Identities=15%  Similarity=0.166  Sum_probs=30.9

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhC----CcEEEEcccc
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG----AHLTVISPHS   88 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~----~~~~~v~~~~   88 (611)
                      ...+..++|.|++|+||||+++.+++.++    .+++.++...
T Consensus        22 ~~~~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~d~   64 (211)
T 1m7g_A           22 NQRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDN   64 (211)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECChH
Confidence            34567899999999999999999998775    4567776443

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.02  E-value=0.0027  Score=62.16  Aligned_cols=111  Identities=14%  Similarity=0.161  Sum_probs=0.0

Q ss_pred             cCCCCCCCcceeCCCCCChHHHHHHHH-----------------------------------------------------
Q 007255          319 LGISPVRGALLHGPPGCSKTTLAKAAA-----------------------------------------------------  345 (611)
Q Consensus       319 ~~~~~~~~~Ll~Gp~G~GKT~la~ala-----------------------------------------------------  345 (611)
                      +.+.+..-+.|.||+|+||||++++++                                                     
T Consensus        29 l~i~~Ge~~~iiGpnGsGKSTLl~~l~Gl~~p~~G~I~~~G~~i~~~~~~~~~~~~~ig~v~Q~~~~~~~~~tv~e~l~~  108 (275)
T 3gfo_A           29 MNIKRGEVTAILGGNGVGKSTLFQNFNGILKPSSGRILFDNKPIDYSRKGIMKLRESIGIVFQDPDNQLFSASVYQDVSF  108 (275)
T ss_dssp             EEEETTSEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEECCCSHHHHHHHHHSEEEECSSGGGTCCSSBHHHHHHH
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHcCCCCCCeEEEECCEECCcccccHHHHhCcEEEEEcCcccccccCcHHHHHHH


Q ss_pred             -------------HHhCCcEEeecchhhccccccchHHHHHHHHHHHHh--cCCcEEEEcccccccccCCCCCCCCcchh
Q 007255          346 -------------HAAEASFFSLSGAELYSMYVGESEALLRNTFQRARL--AAPSIIFFDEADVVGAKRGGSSSTSITVG  410 (611)
Q Consensus       346 -------------~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~--~~p~il~iDeid~l~~~~~~~~~~~~~~~  410 (611)
                                   .....-+-.+...++..++.+....-.++-...|+.  ..|.+|++||             ......
T Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~LSgGqkQRv~iAraL~~~P~lLlLDE-------------Pts~LD  175 (275)
T 3gfo_A          109 GAVNMKLPEDEIRKRVDNALKRTGIEHLKDKPTHCLSFGQKKRVAIAGVLVMEPKVLILDE-------------PTAGLD  175 (275)
T ss_dssp             HHHTSCCCHHHHHHHHHHHHHHTTCGGGTTSBGGGSCHHHHHHHHHHHHHTTCCSEEEEEC-------------TTTTCC
T ss_pred             HHHHcCCCHHHHHHHHHHHHHHcCCchhhcCCcccCCHHHHHHHHHHHHHHcCCCEEEEEC-------------ccccCC


Q ss_pred             HHHHHHHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          411 ERLLSTLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       411 ~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      ......++..+..+....+..+|.+|...+.+
T Consensus       176 ~~~~~~i~~~l~~l~~~~g~tvi~vtHdl~~~  207 (275)
T 3gfo_A          176 PMGVSEIMKLLVEMQKELGITIIIATHDIDIV  207 (275)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCEEEEEESCCSSG
T ss_pred             HHHHHHHHHHHHHHHhhCCCEEEEEecCHHHH

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.01  E-value=0.0038  Score=59.33  Aligned_cols=30  Identities=23%  Similarity=0.455  Sum_probs=26.3

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      ..+.|.||+|+|||++++.+|..++..++.
T Consensus        10 ~~i~i~G~~GsGKsTla~~la~~lg~~~~d   39 (233)
T 3r20_A           10 LVVAVDGPAGTGKSSVSRGLARALGARYLD   39 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            458899999999999999999999977644

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=96.00  E-value=0.012  Score=53.99  Aligned_cols=35  Identities=29%  Similarity=0.246  Sum_probs=26.3

Q ss_pred             CceEEEEcCCCCcHH-HHHHHHHHHh--CCcEEEEccc
Q 007255           53 PRGLLLYGPPGTGKT-SLVRAVVREC--GAHLTVISPH   87 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT-~la~~la~~l--~~~~~~v~~~   87 (611)
                      ..-.+++||.|+||| .|++++.+..  +..++.+.+.
T Consensus        20 g~l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp~   57 (195)
T 1w4r_A           20 GQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYA   57 (195)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEET
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEccc
Confidence            356899999999999 8888886643  5666666533

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.00  E-value=0.0058  Score=57.51  Aligned_cols=30  Identities=23%  Similarity=0.303  Sum_probs=25.8

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      +..|.|.|++|+||||+++.+++ +|.+++.
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~-lg~~~id   33 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD-LGINVID   33 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH-TTCEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH-cCCEEEE
Confidence            46799999999999999999998 7776544

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.99  E-value=0.0024  Score=63.92  Aligned_cols=34  Identities=18%  Similarity=0.166  Sum_probs=30.0

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecch
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~  358 (611)
                      .-++|.||+|+|||+|+..||..++..++..+.-
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~Ds~   74 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAHFPLEVINSDKM   74 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTSCEEEEECCSS
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHCCCcEEccccc
Confidence            3588999999999999999999999888876654

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=95.99  E-value=0.019  Score=65.52  Aligned_cols=108  Identities=19%  Similarity=0.135  Sum_probs=55.2

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh-----CCcE----E----------eecchhhccccccchHHHHHHHHHHHH-hcC
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA-----EASF----F----------SLSGAELYSMYVGESEALLRNTFQRAR-LAA  383 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~----~----------~~~~~~~~~~~~g~~~~~~~~~~~~a~-~~~  383 (611)
                      ..-++|.||.|+|||++.+.++...     +..+    .          .+...+............++++...++ ...
T Consensus       673 g~i~~ItGPNGaGKSTlLr~i~~i~~~aq~g~~vpa~~~~i~~~d~i~~~ig~~d~l~~~~stfs~em~~~~~il~~a~~  752 (918)
T 3thx_B          673 ERVMIITGPNMGGKSSYIKQVALITIMAQIGSYVPAEEATIGIVDGIFTRMGAADNIYKGRSTFMEELTDTAEIIRKATS  752 (918)
T ss_dssp             CCEEEEESCCCHHHHHHHHHHHHHHHHHHHTCCBSSSEEEEECCSEEEEEC----------CCHHHHHHHHHHHHHHCCT
T ss_pred             CeEEEEECCCCCchHHHHHHHHHHHHHhhcCccccchhhhhhHHHHHHHhCChHHHHHHhHHHhhHHHHHHHHHHHhccC
Confidence            3457899999999999999987432     2211    1          111111111111222222333333332 467


Q ss_pred             CcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccc
Q 007255          384 PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAID  443 (611)
Q Consensus       384 p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld  443 (611)
                      |++|++||.-.=         -+......+...++..+.   ...+..+|.+|...+...
T Consensus       753 p~LlLLDEP~~G---------lD~~~~~~i~~~il~~L~---~~~g~tvl~vTH~~el~~  800 (918)
T 3thx_B          753 QSLVILDELGRG---------TSTHDGIAIAYATLEYFI---RDVKSLTLFVTHYPPVCE  800 (918)
T ss_dssp             TCEEEEESTTTT---------SCHHHHHHHHHHHHHHHH---HTTCCEEEEECSCGGGGG
T ss_pred             CCEEEEeCCCCC---------CCHHHHHHHHHHHHHHHH---HhcCCeEEEEeCcHHHHH
Confidence            899999997421         111112334446666552   223456777888876554

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.99  E-value=0.0034  Score=57.89  Aligned_cols=29  Identities=17%  Similarity=0.202  Sum_probs=25.8

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      +.|+|++|||||++++.++..+|++++..
T Consensus        15 IgltG~~GSGKSTva~~L~~~lg~~vid~   43 (192)
T 2grj_A           15 IGVTGKIGTGKSTVCEILKNKYGAHVVNV   43 (192)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCEEEEC
Confidence            67899999999999999999989887654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.98  E-value=0.004  Score=57.87  Aligned_cols=27  Identities=22%  Similarity=0.405  Sum_probs=24.2

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      .++..+.|.||+|+||||+++.++..+
T Consensus         4 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            4 EKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            355789999999999999999999987

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=95.97  E-value=0.0077  Score=60.51  Aligned_cols=28  Identities=25%  Similarity=0.297  Sum_probs=24.7

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHH
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      |+++..-++++||||+|||+++..++..
T Consensus        94 Gl~~g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           94 GLESQSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            5666778999999999999999999875

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=95.96  E-value=0.034  Score=52.08  Aligned_cols=60  Identities=13%  Similarity=0.054  Sum_probs=33.8

Q ss_pred             cccccccchhHHHHHHHHHhh-ccCCChh-HHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          287 VTWEDIGGLRDLKKKLQQAVE-WPIKHST-AFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~-~~~~~~~-~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .+|+++.-.+.+.+.+.+.-. .|..++. .+..+  ...+.+++.+|+|+|||..+...+...
T Consensus        14 ~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~--~~~~~~li~~~TGsGKT~~~~~~~~~~   75 (220)
T 1t6n_A           14 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQA--ILGMDVLCQAKSGMGKTAVFVLATLQQ   75 (220)
T ss_dssp             CCSTTSCCCHHHHHHHHHTTCCCCCHHHHHHHHHH--HTTCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHH--hCCCCEEEECCCCCchhhhhhHHHHHh
Confidence            457777656666666655311 1111111 11111  112569999999999998776655444

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.96  E-value=0.0053  Score=57.18  Aligned_cols=28  Identities=25%  Similarity=0.358  Sum_probs=24.3

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhC
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~  349 (611)
                      ..+.-++|.||||+|||++++.++..++
T Consensus        10 ~~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           10 ARIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            4456688999999999999999999875

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.96  E-value=0.0023  Score=65.17  Aligned_cols=111  Identities=22%  Similarity=0.216  Sum_probs=0.0

Q ss_pred             cCCCCCCCcceeCCCCCChHHHHHHHH-----------------------------------------------------
Q 007255          319 LGISPVRGALLHGPPGCSKTTLAKAAA-----------------------------------------------------  345 (611)
Q Consensus       319 ~~~~~~~~~Ll~Gp~G~GKT~la~ala-----------------------------------------------------  345 (611)
                      +.+.+..-+.|.||+||||||+.+++|                                                     
T Consensus        24 l~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni~~~~~~~  103 (362)
T 2it1_A           24 LKIKDGEFMALLGPSGSGKSTLLYTIAGIYKPTSGKIYFDEKDVTELPPKDRNVGLVFQNWALYPHMTVYKNIAFPLELR  103 (362)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCGGGTTEEEECTTCCCCTTSCHHHHHHHHHHHT
T ss_pred             EEECCCCEEEEECCCCchHHHHHHHHhcCCCCCceEEEECCEECCcCCHhHCcEEEEecCcccCCCCCHHHHHHHHHHhc


Q ss_pred             --------HHhCCcEEeecchhhccccccchHHHHHHHHHHHHh--cCCcEEEEcccccccccCCCCCCCCcchhHHHHH
Q 007255          346 --------HAAEASFFSLSGAELYSMYVGESEALLRNTFQRARL--AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLS  415 (611)
Q Consensus       346 --------~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~--~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~  415 (611)
                              .....-+-.+...++..++..+-..--++-...|+.  ..|.++++||             ...........
T Consensus       104 ~~~~~~~~~~v~~~l~~~~L~~~~~r~~~~LSGGq~QRvalArAL~~~P~lLLLDE-------------P~s~LD~~~r~  170 (362)
T 2it1_A          104 KAPREEIDKKVREVAKMLHIDKLLNRYPWQLSGGQQQRVAIARALVKEPEVLLLDE-------------PLSNLDALLRL  170 (362)
T ss_dssp             TCCHHHHHHHHHHHHHHTTCTTCTTCCGGGSCHHHHHHHHHHHHHTTCCSEEEEES-------------GGGGSCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCCchHhhCChhhCCHHHHHHHHHHHHHHcCCCEEEEEC-------------ccccCCHHHHH


Q ss_pred             HHHHHhcCCCCCCCeEEEEecCCCccc
Q 007255          416 TLLTEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       416 ~ll~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      .+...+..+....+..+|.+|...+++
T Consensus       171 ~l~~~l~~l~~~~g~tvi~vTHd~~~a  197 (362)
T 2it1_A          171 EVRAELKRLQKELGITTVYVTHDQAEA  197 (362)
T ss_dssp             HHHHHHHHHHHHHTCEEEEEESCHHHH
T ss_pred             HHHHHHHHHHHhCCCEEEEECCCHHHH

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.95  E-value=0.011  Score=55.34  Aligned_cols=40  Identities=23%  Similarity=0.245  Sum_probs=30.7

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhC----CcEEeecchhhc
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAE----ASFFSLSGAELY  361 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~----~~~~~~~~~~~~  361 (611)
                      ..+.-++|.|++|+|||++++.++..++    .+++.++...+.
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~d~~r   66 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIR   66 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECChHHh
Confidence            3445688999999999999999998764    557777655543

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=95.93  E-value=0.007  Score=55.87  Aligned_cols=27  Identities=22%  Similarity=0.443  Sum_probs=24.3

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      .+..++|+||+|+||||+++.+++...
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            457899999999999999999998865

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.90  E-value=0.0059  Score=55.86  Aligned_cols=34  Identities=24%  Similarity=0.309  Sum_probs=27.4

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVIS   85 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~---~~~~~v~   85 (611)
                      .+..++|.|++|+||||+++.++..++   ..+..++
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~   48 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLD   48 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEee
Confidence            457899999999999999999999874   3344444

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=95.83  E-value=0.0036  Score=58.37  Aligned_cols=28  Identities=25%  Similarity=0.207  Sum_probs=24.2

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      .+.|.||+|+||||+++.+|. +|.+++.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~-lg~~~id   31 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD-LGVPLVD   31 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT-TTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcccc
Confidence            367899999999999999998 7877754

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.82  E-value=0.013  Score=57.87  Aligned_cols=32  Identities=19%  Similarity=0.159  Sum_probs=27.2

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecc
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~  357 (611)
                      -+++.||+|+|||++|..+|..++..+++.+.
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~~~~iis~Ds   36 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRLNGEVISGDS   36 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTTEEEEECCG
T ss_pred             EEEEECCCcCCHHHHHHHHHHhCccceeecCc
Confidence            47789999999999999999999877765544

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.82  E-value=0.0059  Score=61.25  Aligned_cols=32  Identities=22%  Similarity=0.347  Sum_probs=27.4

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~   85 (611)
                      ..|++.||+|+|||++++.+|+.++..++..+
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~~~iis~D   39 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFNGEIISGD   39 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTEEEEECC
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcCCceeccc
Confidence            47899999999999999999999996555444

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.82  E-value=0.0049  Score=57.18  Aligned_cols=27  Identities=37%  Similarity=0.755  Sum_probs=22.9

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      ++..+.|+||+|+||||+++.++..+.
T Consensus         3 ~g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            3 GPRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             --CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            346799999999999999999998764

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.82  E-value=0.0066  Score=55.66  Aligned_cols=26  Identities=19%  Similarity=0.488  Sum_probs=22.4

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCC
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGA   79 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~   79 (611)
                      ..++|.||+|+||||+++.++...+.
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~~~g   28 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQLDN   28 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSS
T ss_pred             eEEEEECCCCCcHHHHHHHHhcccCC
Confidence            35789999999999999999986654

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.81  E-value=0.0085  Score=57.19  Aligned_cols=32  Identities=16%  Similarity=0.370  Sum_probs=27.9

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .+..+.|.|++|+||||+++.+++.+|.+++.
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~lg~~~~d   46 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDFGFTYLD   46 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcCCceec
Confidence            45679999999999999999999999976543

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.81  E-value=0.0052  Score=57.17  Aligned_cols=31  Identities=23%  Similarity=0.386  Sum_probs=27.2

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      .+.|.|++|+|||++++.+|..++.+++..+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~d~d   34 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYLSSG   34 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceeccc
Confidence            4789999999999999999999998876543

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.81  E-value=0.0048  Score=60.88  Aligned_cols=34  Identities=26%  Similarity=0.392  Sum_probs=29.3

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecch
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~  358 (611)
                      .-+++.||+|+|||++|..+|..++..+++.+.-
T Consensus        11 ~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~   44 (316)
T 3foz_A           11 KAIFLMGPTASGKTALAIELRKILPVELISVDSA   44 (316)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSCEEEEECCTT
T ss_pred             cEEEEECCCccCHHHHHHHHHHhCCCcEEecccc
Confidence            4578899999999999999999999888776543

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.80  E-value=0.02  Score=53.12  Aligned_cols=37  Identities=22%  Similarity=0.198  Sum_probs=29.0

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccc
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~   87 (611)
                      ..+.-+.+.||+|+||||+++.++..+   +..++.++..
T Consensus        20 ~~~~~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d   59 (201)
T 1rz3_A           20 AGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMD   59 (201)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGG
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEeccC
Confidence            345679999999999999999999876   5556555433

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=95.80  E-value=0.027  Score=53.43  Aligned_cols=56  Identities=16%  Similarity=0.032  Sum_probs=31.4

Q ss_pred             CcccccccchhHHHHHHHHHhh-ccCCChh-HHhhcCCCCCCCcceeCCCCCChHHHHHH
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVE-WPIKHST-AFSRLGISPVRGALLHGPPGCSKTTLAKA  343 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~-~~~~~~~-~~~~~~~~~~~~~Ll~Gp~G~GKT~la~a  343 (611)
                      ..+|+++.-.+.+.+.+.+.-. .+..++. .+..  +...+.+++.+|+|+|||..+-.
T Consensus        24 ~~~f~~~~l~~~l~~~l~~~~~~~~~~~Q~~~i~~--~~~~~~~li~a~TGsGKT~~~~~   81 (236)
T 2pl3_A           24 ITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGL--ALQGKDVLGAAKTGSGKTLAFLV   81 (236)
T ss_dssp             CSBGGGSCCCHHHHHHHHHTTCCBCCHHHHHHHHH--HHTTCCEEEECCTTSCHHHHHHH
T ss_pred             cCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHH--HhCCCCEEEEeCCCCcHHHHHHH
Confidence            3467777666666666655311 1111111 1111  11235799999999999986543

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.79  E-value=0.0073  Score=56.78  Aligned_cols=31  Identities=23%  Similarity=0.372  Sum_probs=27.3

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      +..+.|.|++|+|||++++.+++.+|.+++.
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~~g~~~~~   33 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASELSMIYVD   33 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCceec
Confidence            3579999999999999999999999977554

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.77  E-value=0.0064  Score=56.42  Aligned_cols=27  Identities=41%  Similarity=0.618  Sum_probs=23.8

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      ++.-+.|.||+|+||||+++.++..+.
T Consensus         6 ~g~ii~l~Gp~GsGKSTl~~~L~~~~~   32 (205)
T 3tr0_A            6 KANLFIISAPSGAGKTSLVRALVKALA   32 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHSS
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            456789999999999999999998864

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=95.77  E-value=0.0054  Score=56.17  Aligned_cols=68  Identities=21%  Similarity=0.223  Sum_probs=41.3

Q ss_pred             CCcceeCCCCCChH-HHHHHHHHHh--CCcEEeecchhhccccccch--H----------HHHHHHHHHHHhcCCcEEEE
Q 007255          325 RGALLHGPPGCSKT-TLAKAAAHAA--EASFFSLSGAELYSMYVGES--E----------ALLRNTFQRARLAAPSIIFF  389 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT-~la~ala~~~--~~~~~~~~~~~~~~~~~g~~--~----------~~~~~~~~~a~~~~p~il~i  389 (611)
                      .-.++|||.|+||| .|.+++.+..  +..++.+++. +-.+|....  .          .....++...  ...++|+|
T Consensus        21 ~l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp~-~D~R~~~~i~S~~g~~~~A~~~~~~~d~~~~~--~~~DvIlI   97 (195)
T 1w4r_A           21 QIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYA-KDTRYSSSFCTHDRNTMEALPACLLRDVAQEA--LGVAVIGI   97 (195)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEET-TCCCGGGSCCHHHHHHSEEEEESSGGGGHHHH--HTCSEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEccc-cCccchhhhhhccCCcccceecCCHHHHHHhc--cCCCEEEE
Confidence            34678999999999 8999888765  6677777644 111111000  0          0112223322  23569999


Q ss_pred             cccccc
Q 007255          390 DEADVV  395 (611)
Q Consensus       390 Deid~l  395 (611)
                      ||+..+
T Consensus        98 DEaQFf  103 (195)
T 1w4r_A           98 DEGQFF  103 (195)
T ss_dssp             SSGGGC
T ss_pred             Echhhh
Confidence            999877

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=95.76  E-value=0.005  Score=59.25  Aligned_cols=30  Identities=27%  Similarity=0.453  Sum_probs=26.0

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEE
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~  353 (611)
                      +.-+.|.||+|+||||+++.++..+|...+
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg~~~~   56 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFGLQHL   56 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCCCE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEe
Confidence            356889999999999999999999987654

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.75  E-value=0.0048  Score=57.54  Aligned_cols=31  Identities=16%  Similarity=0.215  Sum_probs=25.4

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHh-CCcE
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVREC-GAHL   81 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l-~~~~   81 (611)
                      ..+..+.+.|++|+||||+++.+++.+ +..+
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~~~~~~~~   50 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQKHLPNCSV   50 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTTSTTEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhcCCcEE
Confidence            344678999999999999999999987 4443

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=95.73  E-value=0.0068  Score=62.06  Aligned_cols=34  Identities=15%  Similarity=0.320  Sum_probs=28.5

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~   86 (611)
                      +.-|++.||+|+|||+++..+|+.++..++..+.
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~~~~~iis~Ds   35 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQKFNGEVINSDS   35 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHHHTEEEEECCT
T ss_pred             CcEEEEECcchhhHHHHHHHHHHHCCCeEeecCc
Confidence            3568899999999999999999999977655443

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=95.71  E-value=0.015  Score=59.11  Aligned_cols=70  Identities=7%  Similarity=0.058  Sum_probs=36.9

Q ss_pred             cccccccchhHHHHHHHHHhhc-cCCChh-HHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh-----CCcEEeecc
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEW-PIKHST-AFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSG  357 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~-~~~~~~-~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~  357 (611)
                      .+|+++.-.+.+.+.|.+.-.. +..++. .+..+ ....+++++.+|+|+|||..+-..+...     +...+.+.+
T Consensus         6 ~~f~~~~l~~~~~~~l~~~g~~~~~~~Q~~~i~~~-~~~~~~~l~~~~TGsGKT~~~~~~~~~~~~~~~~~~~lil~P   82 (367)
T 1hv8_A            6 MNFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLF-LNDEYNIVAQARTGSGKTASFAIPLIELVNENNGIEAIILTP   82 (367)
T ss_dssp             CCGGGSSCCHHHHHHHHHHTCCSCCHHHHHHHHHH-HHTCSEEEEECCSSSSHHHHHHHHHHHHSCSSSSCCEEEECS
T ss_pred             CchhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHH-hCCCCCEEEECCCCChHHHHHHHHHHHHhcccCCCcEEEEcC
Confidence            4566665555666665543211 111111 11110 1112578999999999999876655443     344555544

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=95.71  E-value=0.025  Score=52.63  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=20.5

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +.+++.+|+|+|||.++..++...
T Consensus        49 ~~~li~~~tGsGKT~~~~~~~~~~   72 (216)
T 3b6e_A           49 KNIIICLPTGSGKTRVAVYIAKDH   72 (216)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHHHHHH
Confidence            469999999999999988877653

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=95.71  E-value=0.0031  Score=63.90  Aligned_cols=111  Identities=18%  Similarity=0.156  Sum_probs=0.0

Q ss_pred             cCCCCCCCcceeCCCCCChHHHHHHHH-----------------------------------------------------
Q 007255          319 LGISPVRGALLHGPPGCSKTTLAKAAA-----------------------------------------------------  345 (611)
Q Consensus       319 ~~~~~~~~~Ll~Gp~G~GKT~la~ala-----------------------------------------------------  345 (611)
                      +.+.+..-+.|.||+||||||+.+++|                                                     
T Consensus        21 l~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~~~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~enl~~~~~~~  100 (348)
T 3d31_A           21 LKVESGEYFVILGPTGAGKTLFLELIAGFHVPDSGRILLDGKDVTDLSPEKHDIAFVYQNYSLFPHMNVKKNLEFGMRMK  100 (348)
T ss_dssp             EEECTTCEEEEECCCTHHHHHHHHHHHTSSCCSEEEEEETTEECTTSCHHHHTCEEECTTCCCCTTSCHHHHHHHHHHHH
T ss_pred             EEEcCCCEEEEECCCCccHHHHHHHHHcCCCCCCcEEEECCEECCCCchhhCcEEEEecCcccCCCCCHHHHHHHHHHHc


Q ss_pred             -----HHhCCcEEeecchhhccccccchHHHHHHHHHHHHh--cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHH
Q 007255          346 -----HAAEASFFSLSGAELYSMYVGESEALLRNTFQRARL--AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (611)
Q Consensus       346 -----~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~--~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll  418 (611)
                           .....-+-.+...++..++..+-..--++-...|+.  ..|.++++||             ............+.
T Consensus       101 ~~~~~~~v~~~l~~~~L~~~~~~~~~~LSgGq~QRvalAraL~~~P~lLLLDE-------------P~s~LD~~~~~~l~  167 (348)
T 3d31_A          101 KIKDPKRVLDTARDLKIEHLLDRNPLTLSGGEQQRVALARALVTNPKILLLDE-------------PLSALDPRTQENAR  167 (348)
T ss_dssp             CCCCHHHHHHHHHHTTCTTTTTSCGGGSCHHHHHHHHHHHHTTSCCSEEEEES-------------SSTTSCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEEC-------------ccccCCHHHHHHHH


Q ss_pred             HHhcCCCCCCCeEEEEecCCCccc
Q 007255          419 TEMDGLEQAKGILVLAATNRPHAI  442 (611)
Q Consensus       419 ~~l~~~~~~~~~~vI~~tn~~~~l  442 (611)
                      ..+..+....+..+|.+|...+++
T Consensus       168 ~~l~~l~~~~g~tii~vTHd~~~~  191 (348)
T 3d31_A          168 EMLSVLHKKNKLTVLHITHDQTEA  191 (348)
T ss_dssp             HHHHHHHHHTTCEEEEEESCHHHH
T ss_pred             HHHHHHHHhcCCEEEEEeCCHHHH

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=95.70  E-value=0.003  Score=63.72  Aligned_cols=71  Identities=15%  Similarity=0.141  Sum_probs=44.7

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHhC--CcEEeecchhhcc-----c---cccchHHHHHHHHHHHHhcCCcEEEEccc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAAE--ASFFSLSGAELYS-----M---YVGESEALLRNTFQRARLAAPSIIFFDEA  392 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~~--~~~~~~~~~~~~~-----~---~~g~~~~~~~~~~~~a~~~~p~il~iDei  392 (611)
                      +...+++.||+|+|||+++++++....  ...+.+.......     .   +........+..+..+-...|.++++||.
T Consensus       170 ~g~~v~i~G~~GsGKTTll~~l~g~~~~~~g~i~i~~~~e~~~~~~~~~i~~~~ggg~~~r~~la~aL~~~p~ilildE~  249 (330)
T 2pt7_A          170 IGKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGEL  249 (330)
T ss_dssp             HTCCEEEEESTTSCHHHHHHHGGGGSCTTSCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEECCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcCCCcEEEECCeeccccccchhEEEEEeCCChhHHHHHHHHhhhCCCEEEEcCC
Confidence            345689999999999999999998873  2334443321110     0   12001223344555555678999999997


Q ss_pred             c
Q 007255          393 D  393 (611)
Q Consensus       393 d  393 (611)
                      -
T Consensus       250 ~  250 (330)
T 2pt7_A          250 R  250 (330)
T ss_dssp             C
T ss_pred             C
Confidence            4

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.70  E-value=0.012  Score=58.36  Aligned_cols=28  Identities=21%  Similarity=0.419  Sum_probs=24.3

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      ..++..+.|+||+|+||||+++.+|..+
T Consensus        97 ~~~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           97 FRKPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SSSCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cCCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3456789999999999999999999875

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.70  E-value=0.048  Score=57.20  Aligned_cols=39  Identities=21%  Similarity=0.258  Sum_probs=31.9

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~   87 (611)
                      |+.+..-+++.|+||+|||+++-.+|...   |.++..++..
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSlE  234 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLE  234 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECSS
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEECC
Confidence            67777889999999999999999887655   5677777654

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=95.70  E-value=0.015  Score=62.30  Aligned_cols=37  Identities=24%  Similarity=0.387  Sum_probs=29.3

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHS   88 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~   88 (611)
                      .+.-|+|+|.||+||||+++.+++.+   +.....++..+
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~~~~~d~~v~s~D~   73 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLNWIGVPTKVFNVGE   73 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEecccH
Confidence            34579999999999999999999988   45555565543

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.69  E-value=0.0078  Score=55.02  Aligned_cols=38  Identities=29%  Similarity=0.194  Sum_probs=28.3

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhh
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAEL  360 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~  360 (611)
                      .+..++|.|+||+|||++++.+|..+   +..+..++...+
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~d~~   52 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLDGDWA   52 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEeeHHHH
Confidence            34568899999999999999999887   344555554433

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.69  E-value=0.0026  Score=59.49  Aligned_cols=28  Identities=14%  Similarity=0.087  Sum_probs=24.0

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEAS  351 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~  351 (611)
                      +.-++|.|+||+|||++++.++..++..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~~   37 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKNN   37 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            4458899999999999999999987544

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.67  E-value=0.0026  Score=59.60  Aligned_cols=27  Identities=22%  Similarity=0.126  Sum_probs=23.4

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCC
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEA  350 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~  350 (611)
                      +.-++|.|+||+|||++++.++..++.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            456889999999999999999998743

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=95.66  E-value=0.0046  Score=57.31  Aligned_cols=30  Identities=20%  Similarity=0.100  Sum_probs=25.6

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ..+.|.|++|+|||++++.+|.. |.+++..
T Consensus         9 ~~I~i~G~~GsGKST~~~~La~~-g~~~id~   38 (203)
T 1uf9_A            9 IIIGITGNIGSGKSTVAALLRSW-GYPVLDL   38 (203)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHT-TCCEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHC-CCEEEcc
Confidence            45789999999999999999998 7776543

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.64  E-value=0.0067  Score=60.20  Aligned_cols=24  Identities=29%  Similarity=0.571  Sum_probs=22.0

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      ..|+|.|+||+||||+++.+++.+
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~   26 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKN   26 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999999999999964

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.63  E-value=0.0053  Score=57.25  Aligned_cols=27  Identities=19%  Similarity=0.091  Sum_probs=23.8

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEAS  351 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~  351 (611)
                      .-++|.|+||+|||++++.++..++..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            347899999999999999999998763

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.60  E-value=0.028  Score=58.98  Aligned_cols=38  Identities=21%  Similarity=0.121  Sum_probs=29.5

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecc
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG  357 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~  357 (611)
                      |+.+..-+++.|+||+|||++|..+|...   |.++..++.
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSl  233 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSL  233 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECS
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEEC
Confidence            66777778999999999999999888765   555555543

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.60  E-value=0.0077  Score=58.15  Aligned_cols=38  Identities=13%  Similarity=0.087  Sum_probs=30.7

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcE--------Eeecchhhcc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASF--------FSLSGAELYS  362 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~--------~~~~~~~~~~  362 (611)
                      .-+.|.|++|+|||++|+.++..++.++        ..++..++..
T Consensus        23 ~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~~~   68 (252)
T 1uj2_A           23 FLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFYR   68 (252)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGGBC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCcccc
Confidence            4578999999999999999999998763        3566666654

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=95.59  E-value=0.028  Score=53.45  Aligned_cols=21  Identities=29%  Similarity=0.495  Sum_probs=17.2

Q ss_pred             CCcceeCCCCCChHHHHHHHH
Q 007255          325 RGALLHGPPGCSKTTLAKAAA  345 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala  345 (611)
                      +.+++.||+|||||++...+.
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHH
T ss_pred             CEEEEEeCCCCCcHHhHHHHH
Confidence            568999999999998666554

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.59  E-value=0.0092  Score=58.66  Aligned_cols=30  Identities=30%  Similarity=0.320  Sum_probs=25.3

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      +..|.|.|++|+||||+++.++ .+|.+++.
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La-~lg~~~id  104 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK-NLGAYIID  104 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH-HHTCEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHH-HCCCcEEe
Confidence            4579999999999999999999 57866543

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.59  E-value=0.0077  Score=58.19  Aligned_cols=30  Identities=30%  Similarity=0.399  Sum_probs=26.2

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      ..+.|.||+|+|||++++.+|..+|..++.
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La~~Lg~~~~d   57 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALAESLNWRLLD   57 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCCCcCC
Confidence            357899999999999999999999987653

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.59  E-value=0.012  Score=59.72  Aligned_cols=28  Identities=21%  Similarity=0.419  Sum_probs=24.4

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      ..++..+.|+||+|+||||+++.+|..+
T Consensus       154 ~~~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          154 FRKPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSSSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cCCCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            3456789999999999999999999876

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=95.57  E-value=0.054  Score=54.28  Aligned_cols=27  Identities=22%  Similarity=0.084  Sum_probs=23.5

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .++.-+.|.||+|+||||+++.+|..+
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            445668899999999999999999876

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.55  E-value=0.01  Score=55.36  Aligned_cols=35  Identities=26%  Similarity=0.408  Sum_probs=27.5

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~   86 (611)
                      ++..+.|.||+|+||||+++.++..++..+..++.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~~~i~~v~~   39 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLGERVALLPM   39 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHGGGEEEEEG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhCCCeEEEec
Confidence            44678999999999999999999988733334443

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=95.55  E-value=0.023  Score=57.64  Aligned_cols=27  Identities=26%  Similarity=0.426  Sum_probs=23.5

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      .....++++||+|+|||++++.+++.+
T Consensus       172 ~rGQr~~IvG~sG~GKTtLl~~Iar~i  198 (422)
T 3ice_A          172 GRGQRGLIVAPPKAGKTMLLQNIAQSI  198 (422)
T ss_dssp             BTTCEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             cCCcEEEEecCCCCChhHHHHHHHHHH
Confidence            345689999999999999999998865

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.53  E-value=0.01  Score=52.78  Aligned_cols=29  Identities=28%  Similarity=0.353  Sum_probs=25.3

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      .+.+...+.|.||.|+||||+++.++..+
T Consensus        29 ~i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           29 HTEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CCSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34556679999999999999999999987

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.53  E-value=0.0062  Score=61.12  Aligned_cols=32  Identities=22%  Similarity=0.252  Sum_probs=27.6

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecc
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~  357 (611)
                      -+++.||+|+|||++|..+|..++..++..+.
T Consensus         9 lI~I~GptgSGKTtla~~La~~l~~~iis~Ds   40 (340)
T 3d3q_A            9 LIVIVGPTASGKTELSIEVAKKFNGEIISGDS   40 (340)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTEEEEECCS
T ss_pred             eEEEECCCcCcHHHHHHHHHHHcCCceecccc
Confidence            57899999999999999999999877666543

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=95.52  E-value=0.043  Score=62.77  Aligned_cols=22  Identities=18%  Similarity=0.211  Sum_probs=19.0

Q ss_pred             CCcceeCCCCCChHHHHHHHHH
Q 007255          325 RGALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~  346 (611)
                      .-++|.||.|+|||++.+.+|.
T Consensus       663 ~i~~ItGpNGsGKSTlLr~ial  684 (934)
T 3thx_A          663 MFHIITGPNMGGKSTYIRQTGV  684 (934)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3478999999999999999854

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.52  E-value=0.0076  Score=56.67  Aligned_cols=31  Identities=26%  Similarity=0.372  Sum_probs=27.2

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ..+.|.|++|+|||++++.+|..+|.+++..
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~g~~~~~~   34 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASELSMIYVDT   34 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCceecC
Confidence            3588999999999999999999999887654

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=95.51  E-value=0.014  Score=60.93  Aligned_cols=33  Identities=18%  Similarity=0.155  Sum_probs=27.5

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      .+.-++++|+||+|||++|+.++..++..++..
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~~~~~i~~  289 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNR  289 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGGTCEECCG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhcCcEEEcc
Confidence            345688999999999999999999988766543

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.49  E-value=0.0082  Score=56.59  Aligned_cols=28  Identities=29%  Similarity=0.591  Sum_probs=23.8

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      +.++..+.|+||+|+||||+++.++..+
T Consensus        20 i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           20 MNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             --CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3455779999999999999999999977

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=95.46  E-value=0.033  Score=57.82  Aligned_cols=69  Identities=16%  Similarity=0.248  Sum_probs=39.6

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhC---CcEEeecc-hhhcc-----cccc-chHHHHHHHHHHHHhcCCcEEEEcccc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAE---ASFFSLSG-AELYS-----MYVG-ESEALLRNTFQRARLAAPSIIFFDEAD  393 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~---~~~~~~~~-~~~~~-----~~~g-~~~~~~~~~~~~a~~~~p~il~iDeid  393 (611)
                      ..+++.||+|+||||+.++++..+.   ..++...- .++..     ..+. .........++.+-...|+++++.|+.
T Consensus       168 gii~I~GpnGSGKTTlL~allg~l~~~~g~I~~~ed~ie~~~~~~~q~~v~~~~g~~f~~~lr~~Lrq~pd~i~vgEiR  246 (418)
T 1p9r_A          168 GIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIGQTQVNPRVDMTFARGLRAILRQDPDVVMVGEIR  246 (418)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCSSSEEEECBGGGTBCHHHHHHHHGGGCCSEEEESCCC
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhcCCCCCEEEEecccchhccCCcceEEEccccCcCHHHHHHHHhccCCCeEEEcCcC
Confidence            3478999999999999999999874   23333221 11100     0001 111112233334444679999999853

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.45  E-value=0.0072  Score=55.45  Aligned_cols=32  Identities=25%  Similarity=0.366  Sum_probs=26.5

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~   85 (611)
                      ...++|.||+|+|||+++..+++... .++..+
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g~-~iIsdD   65 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRGH-RLIADD   65 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTTC-EEEESS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhCC-eEEecc
Confidence            46899999999999999999998876 544433

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.44  E-value=0.0071  Score=55.07  Aligned_cols=25  Identities=12%  Similarity=0.256  Sum_probs=22.0

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhC
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAE  349 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~  349 (611)
                      .-+.|.||+|+|||++++.++....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCC
Confidence            4578999999999999999998764

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=95.43  E-value=0.007  Score=63.15  Aligned_cols=36  Identities=19%  Similarity=0.419  Sum_probs=28.6

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~   89 (611)
                      .+.-|+|+|+||+||||+++.+++.++..  .++...+
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~~~~--~i~~D~~  292 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSAGYV--HVNRDTL  292 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGGTCE--ECCGGGS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhcCcE--EEccchH
Confidence            45679999999999999999999988755  4444443

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.42  E-value=0.0073  Score=56.80  Aligned_cols=30  Identities=27%  Similarity=0.217  Sum_probs=25.5

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      .-+.|.|++|+|||++++.++. +|.+++..
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~-lg~~~id~   34 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD-LGINVIDA   34 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH-TTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH-cCCEEEEc
Confidence            3578999999999999999998 88776554

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=95.42  E-value=0.019  Score=63.52  Aligned_cols=48  Identities=27%  Similarity=0.460  Sum_probs=31.8

Q ss_pred             cHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 007255           24 NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (611)
Q Consensus        24 ~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~   86 (611)
                      ++.+++.+..++..               +.-.|++||||||||+++-.+...+   +..+..+..
T Consensus       191 N~~Q~~AV~~al~~---------------~~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~  241 (646)
T 4b3f_X          191 DTSQKEAVLFALSQ---------------KELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAP  241 (646)
T ss_dssp             CHHHHHHHHHHHHC---------------SSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CHHHHHHHHHHhcC---------------CCceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEcC
Confidence            56777777766532               2367999999999998766554443   445544443

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.39  E-value=0.0097  Score=56.79  Aligned_cols=31  Identities=23%  Similarity=0.352  Sum_probs=26.9

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      +..+.|.|++|+|||++++.+|..+|.+++.
T Consensus        16 ~~~i~i~G~~gsGKst~~~~l~~~lg~~~~d   46 (236)
T 1q3t_A           16 TIQIAIDGPASSGKSTVAKIIAKDFGFTYLD   46 (236)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCceec
Confidence            3457899999999999999999999987754

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.39  E-value=0.0091  Score=55.75  Aligned_cols=28  Identities=25%  Similarity=0.400  Sum_probs=24.7

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      .++..+.|.||+|+||||+++.++..+.
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3557889999999999999999999875

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.38  E-value=0.0063  Score=56.52  Aligned_cols=27  Identities=26%  Similarity=0.271  Sum_probs=23.1

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .++.-+.|.||+|+|||++++.++...
T Consensus         4 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            4 EKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            344567899999999999999999876

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.35  E-value=0.0056  Score=57.06  Aligned_cols=32  Identities=28%  Similarity=0.163  Sum_probs=25.3

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh-CCcEEee
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA-EASFFSL  355 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~-~~~~~~~  355 (611)
                      +.-+.+.||+|+|||++++.++..+ +..++..
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~~~~~~~i~~   53 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKHLPNCSVISQ   53 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTSTTEEEEEG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCcEEEeC
Confidence            3447799999999999999999877 5555443

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=95.35  E-value=0.0097  Score=54.43  Aligned_cols=28  Identities=36%  Similarity=0.507  Sum_probs=23.3

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcE
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASF  352 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~  352 (611)
                      +.++|+||+|+|||+|++.+.......+
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~~~~   29 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCCCe
Confidence            4589999999999999999988764433

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=95.32  E-value=0.021  Score=61.18  Aligned_cols=111  Identities=14%  Similarity=0.176  Sum_probs=0.0

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh----CCcEEeecchhhccccc------------------------------
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELYSMYV------------------------------  365 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~~~~~~~~~~------------------------------  365 (611)
                      |+.+..-+++.|+||+|||+++..+|...    +.++..++...-.....                              
T Consensus       238 Gl~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E~s~~~l~~r~~~~~~~~~~~~~~~~~~g~l~~~~~~~  317 (503)
T 1q57_A          238 GARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQ  317 (503)
T ss_dssp             CCCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESSSCHHHHHHHHHHHHTTSCCTTCHHHHHHHHHTSHHHH
T ss_pred             ccCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEeccCCHHHHHHHHHHHHcCCChhhccccccCCCCHHHHHH


Q ss_pred             -------------------cchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC
Q 007255          366 -------------------GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ  426 (611)
Q Consensus       366 -------------------g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  426 (611)
                                         -..+..+..+-...+...+.+|+||-+..+.      .........+.+..++..|..+..
T Consensus       318 ~~~~~~~~~~l~i~~~~~~~~~~~i~~~i~~~~~~~~~~lvVID~l~~l~------~~~~~~~~~~~~~~~~~~Lk~lak  391 (503)
T 1q57_A          318 WFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVV------SASGESDERKMIDNLMTKLKGFAK  391 (503)
T ss_dssp             HHHHHHTTTCEEEECCC---CHHHHHHHHHHHHHTTCCSEEEEECTTCCC------SCCSCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccCCEEEECCCCCCCHHHHHHHHHHHHHhcCCCEEEEccchhcC------CCCCCCCHHHHHHHHHHHHHHHHH


Q ss_pred             CCCeEEEEec
Q 007255          427 AKGILVLAAT  436 (611)
Q Consensus       427 ~~~~~vI~~t  436 (611)
                      .-++.||+++
T Consensus       392 ~~~i~vi~~~  401 (503)
T 1q57_A          392 STGVVLVVIC  401 (503)
T ss_dssp             HHTCEEEEEE
T ss_pred             HHCCeEEEEE

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=95.32  E-value=0.037  Score=58.27  Aligned_cols=100  Identities=15%  Similarity=0.101  Sum_probs=0.0

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhh-------
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAEL-------  360 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~-------  360 (611)
                      ++...+.+++.+.+.+...+.....--.+.+..+.-+.|.||+|+||||+++.||..+   +..+.......+       
T Consensus       260 ~~~~~~~~~~~l~~~l~~~l~~~~~~Isl~i~~GeVI~LVGpNGSGKTTLl~~LAgll~~~~G~V~l~g~D~~r~aa~eQ  339 (503)
T 2yhs_A          260 QLRDAEALYGLLKEEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQ  339 (503)
T ss_dssp             TCCBGGGHHHHHHHHHHHHHHTTBCCCCCCSCTTEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECCCTTCHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHHHhCCCCCCceeeccCCeEEEEECCCcccHHHHHHHHHHHhhhcCCeEEEecCcccchhhHHH


Q ss_pred             -------------ccccccchHHHHHHHHHHHHhcCCcEEEEc
Q 007255          361 -------------YSMYVGESEALLRNTFQRARLAAPSIIFFD  390 (611)
Q Consensus       361 -------------~~~~~g~~~~~~~~~~~~a~~~~p~il~iD  390 (611)
                                   ...........+...+..+....-++++||
T Consensus       340 L~~~~~r~~I~vV~Q~~~~~p~~tV~e~l~~a~~~~~DvVLID  382 (503)
T 2yhs_A          340 LQVWGQRNNIPVIAQHTGADSASVIFDAIQAAKARNIDVLIAD  382 (503)
T ss_dssp             HHHHHHHHTCCEECCSTTCCHHHHHHHHHHHHHHTTCSEEEEC
T ss_pred             HHHHHHhcCceEEecccCcCHHHHHHHHHHHHHhcCCCEEEEe

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.31  E-value=0.048  Score=54.78  Aligned_cols=38  Identities=26%  Similarity=0.322  Sum_probs=31.1

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~   86 (611)
                      |+.+..-+++.|+||+|||+++..+|..+   +.++..++.
T Consensus        42 Gl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSl   82 (338)
T 4a1f_A           42 GFNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSL   82 (338)
T ss_dssp             SBCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEES
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            67777889999999999999999988764   566666654

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=95.31  E-value=0.012  Score=58.25  Aligned_cols=34  Identities=29%  Similarity=0.528  Sum_probs=28.6

Q ss_pred             cCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 007255           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (611)
Q Consensus        48 ~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~   81 (611)
                      +.+++...+.|+||+|+||||+++.++..+...+
T Consensus       121 l~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~~G~I  154 (305)
T 2v9p_A          121 KGIPKKNCLAFIGPPNTGKSMLCNSLIHFLGGSV  154 (305)
T ss_dssp             HTCTTCSEEEEECSSSSSHHHHHHHHHHHHTCEE
T ss_pred             EEecCCCEEEEECCCCCcHHHHHHHHhhhcCceE
Confidence            3566778899999999999999999999884333

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	611
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	4e-96
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	3e-74
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	2e-95
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	2e-72
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	3e-81
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	3e-55
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	2e-60
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	1e-48
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	5e-49
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	3e-36
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	1e-33
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	4e-29
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	6e-33
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	6e-30
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	1e-30
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	3e-30
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	4e-23
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	1e-20
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	2e-19
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	1e-18
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	2e-15
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	6e-15
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	4e-13
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	3e-10
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	8e-11
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	2e-08
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	1e-09
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	3e-09
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	5e-08
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	4e-06
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	5e-06
d1ny5a2	247	c.37.1.20 (A:138-384) Transcriptional activator si	2e-05
d2gnoa2	198	c.37.1.20 (A:11-208) gamma subunit of DNA polymera	2e-04
d1gkya_	186	c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Sac	6e-04
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	6e-04
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	0.001
d3adka_	194	c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [	0.001
d1g41a_	443	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	0.002
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	0.002

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

 Score =  292 bits (750), Expect = 4e-96
 Identities = 101/252 (40%), Positives = 150/252 (59%), Gaps = 3/252 (1%)

Query: 280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTT 339
           +T +  K T+ D+ G  + K+++ + VE+ ++  + F +LG    +G L+ GPPG  KT 
Sbjct: 2   LTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTL 60

Query: 340 LAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR 399
           LAKA A  A+  FF++SG++   M+VG   + +R+ F++A+ AAP IIF DE D VG +R
Sbjct: 61  LAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQR 120

Query: 400 GGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVP 459
           G          E+ L+ +L EMDG E  +GI+V+AATNRP  +D AL+RPGRFD  + V 
Sbjct: 121 GAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVG 180

Query: 460 PPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISAT 519
            PD+  R +IL+VH R + +  D+D   IA  T  F+GA+L  L  EA + A R +    
Sbjct: 181 LPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGN--KR 238

Query: 520 AVRNRHFQTVKD 531
            V    F+  KD
Sbjct: 239 VVSMVEFEKAKD 250

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

 Score =  235 bits (602), Expect = 3e-74
 Identities = 87/256 (33%), Positives = 133/256 (51%), Gaps = 21/256 (8%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           + G   A E + EL+ + L   S+ QKLG K P+G+L+ GPPGTGKT L +A+  E    
Sbjct: 14  VAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP 72

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDV 140
              IS     +  VG     +R+ F QA   A    P ++FIDEIDA+  +R        
Sbjct: 73  FFTISGSDFVEMFVGVGASRVRDMFEQAKKAA----PCIIFIDEIDAVGRQRGAGLGGGH 128

Query: 141 ----RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTA 196
               +  +Q+   MD  + ++     ++V+A+TNR D +DPAL R GRFD +V V +P  
Sbjct: 129 DEREQTLNQMLVEMDGFEGNE----GIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDV 184

Query: 197 EERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAG 256
             R +ILK++ ++VPL  ++D   IA    G+ GADL  L  EA + A + +        
Sbjct: 185 RGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGNKRV----- 239

Query: 257 VLSVTMEDWRHARSVV 272
              V+M ++  A+  +
Sbjct: 240 ---VSMVEFEKAKDKI 252

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

 Score =  290 bits (745), Expect = 2e-95
 Identities = 101/245 (41%), Positives = 148/245 (60%), Gaps = 3/245 (1%)

Query: 283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAK 342
           E PKVT++D+ G  + K++L++ VE+ +K+ + F  +G    +G LL GPPG  KT LA+
Sbjct: 2   EAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLAR 60

Query: 343 AAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGS 402
           A A  A   F + SG++   M+VG   A +R+ F+ A+  AP I+F DE D VG KRG  
Sbjct: 61  AVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSG 120

Query: 403 SSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPD 462
                   E+ L+ LL EMDG E+   I+V+AATNRP  +D AL+RPGRFD  + +  PD
Sbjct: 121 VGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPD 180

Query: 463 LEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVR 522
           ++ R +ILR+H R   + +DVDL  +A+ T  F GA+LE L  EA ++A RE      + 
Sbjct: 181 VKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRR--KIT 238

Query: 523 NRHFQ 527
            +  +
Sbjct: 239 MKDLE 243

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

 Score =  230 bits (589), Expect = 2e-72
 Identities = 89/254 (35%), Positives = 130/254 (51%), Gaps = 21/254 (8%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           + G   A E L+E++ F L   S+  ++G + P+G+LL GPPG GKT L RAV  E    
Sbjct: 11  VAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP 69

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR---- 136
               S     +  VG     +R+ F  A  HA    P +VFIDEIDA+  +R        
Sbjct: 70  FITASGSDFVEMFVGVGAARVRDLFETAKRHA----PCIVFIDEIDAVGRKRGSGVGGGN 125

Query: 137 EQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTA 196
           ++  +  +QL   MD  +        +VV+A+TNR D +DPAL R GRFD ++ +  P  
Sbjct: 126 DEREQTLNQLLVEMDGFEKDT----AIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDV 181

Query: 197 EERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAG 256
           + R +IL+++ +  PL  +VDL  +A    G+VGADLE L  EA + A +          
Sbjct: 182 KGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRR------ 235

Query: 257 VLSVTMEDWRHARS 270
              +TM+D   A S
Sbjct: 236 --KITMKDLEEAAS 247

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 265

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  254 bits (650), Expect = 3e-81
 Identities = 112/264 (42%), Positives = 172/264 (65%), Gaps = 7/264 (2%)

Query: 284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKA 343
           +P+VTWEDIGGL D+K++LQ+ V++P++H   F + G++P +G L +GPPGC KT LAKA
Sbjct: 1   VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKA 60

Query: 344 AAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSS 403
            A+  +A+F S+ G EL +M+ GESEA +R  F +AR AAP ++FFDE D +   RGG+ 
Sbjct: 61  IANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNI 120

Query: 404 STSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDL 463
                  +R+++ +LTEMDG+   K + ++ ATNRP  ID A++RPGR D ++Y+P PD 
Sbjct: 121 GDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE 180

Query: 464 EARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRN 523
           ++R  IL+ + R   V  DVDL  +A+ T  F+GA+L  +C+ A  +A+RE I +   R 
Sbjct: 181 KSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRRE 240

Query: 524 RHFQTVKDSLK-------PALTKE 540
           R  QT   +++       P + ++
Sbjct: 241 RERQTNPSAMEVEEDDPVPEIRRD 264

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 265

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  186 bits (473), Expect = 3e-55
 Identities = 82/235 (34%), Positives = 124/235 (52%), Gaps = 12/235 (5%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           IGG       L+EL+ +P+ +  +  K G+   +G+L YGPPG GKT L +A+  EC A+
Sbjct: 9   IGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN 68

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDV 140
              I    +     GESE  +RE F +A   A    P V+F DE+D++   R        
Sbjct: 69  FISIKGPELLTMWFGESEANVREIFDKARQAA----PCVLFFDELDSIAKARGGNIGDGG 124

Query: 141 ----RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTA 196
               R+ +Q+ T MD     K    +V ++ +TNR D IDPA+ R GR D  + + +P  
Sbjct: 125 GAADRVINQILTEMDGMSTKK----NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE 180

Query: 197 EERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA 251
           + R  ILK   +K P+  +VDLE +A   NG+ GADL  +C+ A   A++ S ++
Sbjct: 181 KSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIES 235

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 258

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  200 bits (508), Expect = 2e-60
 Identities = 104/232 (44%), Positives = 147/232 (63%), Gaps = 3/232 (1%)

Query: 287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAH 346
           V ++D+GG R    ++++ VE P++H   F  +G+ P RG LL+GPPG  KT +A+A A+
Sbjct: 1   VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 60

Query: 347 AAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTS 406
              A FF ++G E+ S   GESE+ LR  F+ A   AP+IIF DE D +  KR  +    
Sbjct: 61  ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHG-- 118

Query: 407 ITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEAR 466
             V  R++S LLT MDGL+Q   ++V+AATNRP++ID AL R GRFD  + +  PD   R
Sbjct: 119 -EVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 177

Query: 467 HEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISA 518
            EIL++HT+NMK+ DDVDL  +A ET    GA+L  LC EA + A+R+ +  
Sbjct: 178 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDL 229

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 258

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  168 bits (426), Expect = 1e-48
 Identities = 103/257 (40%), Positives = 158/257 (61%), Gaps = 16/257 (6%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           +GG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E GA 
Sbjct: 6   VGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF 65

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDV 140
             +I+   +     GESE  LR+AF +A  +     P+++FIDE+DA+ P+R+    +  
Sbjct: 66  FFLINGPEIMSKLAGESESNLRKAFEEAEKN----APAIIFIDELDAIAPKREKTHGEVE 121

Query: 141 RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERF 200
           R   ++ + + +         HV+V+A+TNR ++IDPALRR GRFD EV++ +P A  R 
Sbjct: 122 R---RIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRL 178

Query: 201 EILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA--------- 251
           EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D          
Sbjct: 179 EILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETID 238

Query: 252 NECAGVLSVTMEDWRHA 268
            E    L+VTM+D+R A
Sbjct: 239 AEVMNSLAVTMDDFRWA 255

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

 Score =  171 bits (434), Expect = 5e-49
 Identities = 42/325 (12%), Positives = 94/325 (28%), Gaps = 49/325 (15%)

Query: 226 NGYVGADLEALCREATMSAVKRSS---DANECAGVLSVTME---------------DWRH 267
           + Y       L R A  +A    +     +  +GVL    +                +  
Sbjct: 3   HLYDAKSFAKL-RAAQYAAFHTDAPGSWFDHTSGVLESVEDGTPVLAIGVESGDAIVFDK 61

Query: 268 ARSVVGPSITRGVTVEIPKVTW--EDIGGLRDLKKKLQQA--VEWPIKHSTAFSRLGISP 323
               +     + V  E   V+    + G ++   +        E            G   
Sbjct: 62  NAQRIVAYKEKSVKAEDGSVSVVQVENGFMKQGHRGWLVDLTGELVGCSPVVAEFGGHRY 121

Query: 324 VRGALL-HGPPGCSKTTLAKAAA--HAAEASFFSLSGAELYSMYVGESEALLRNTFQRAR 380
             G ++  G     KT L  A       +  + ++   E  S Y  +    + +  +   
Sbjct: 122 ASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAML 181

Query: 381 LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR-- 438
                +I  D    V    GG++++      R    LL+++  +  ++G +V+A+ N   
Sbjct: 182 --QHRVIVIDSLKNVIGAAGGNTTSG--GISRGAFDLLSDIGAMAASRGCVVIASLNPTS 237

Query: 439 -PHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTG 497
               I   +    R +    V   D++   ++L      ++                   
Sbjct: 238 NDDKIVELVKEASRSNSTSLVISTDVDGEWQVLTRTGEGLQR----------------LT 281

Query: 498 AELEGLCREAGIVALREDISATAVR 522
             L+    E  ++ +     +   +
Sbjct: 282 HTLQTSYGEHSVLTIHTSKQSGGKQ 306

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

 Score =  136 bits (343), Expect = 3e-36
 Identities = 34/249 (13%), Positives = 75/249 (30%), Gaps = 35/249 (14%)

Query: 9   SEHNEKWKAEEAIGGNRAAVEALRELITF-PLLYSSQAQKLGLKWPRG-LLLYGPPGTGK 66
            + +      E     +     L +L           A+  G ++  G +++ G   +GK
Sbjct: 77  EDGSVSVVQVENGFMKQGHRGWLVDLTGELVGCSPVVAEFGGHRYASGMVIVTGKGNSGK 136

Query: 67  TSLVRAVVRECGAHLT--VISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDE 124
           T LV A+    G       +        +  +    + +            +  V+ ID 
Sbjct: 137 TPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAML------QHRVIVIDS 190

Query: 125 IDALCPRRDHRREQDV--RIASQLFTLMDSNKPSKTSVPHVVVVASTNRV---DAIDPAL 179
           +  +              R A  L + + +   S+      VV+AS N     D I   +
Sbjct: 191 LKNVIGAAGGNTTSGGISRGAFDLLSDIGAMAASR----GCVVIASLNPTSNDDKIVELV 246

Query: 180 RRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCRE 239
           + + R ++   V     +  +++L    + +                      L+    E
Sbjct: 247 KEASRSNSTSLVISTDVDGEWQVLTRTGEGLQRL----------------THTLQTSYGE 290

Query: 240 ATMSAVKRS 248
            ++  +  S
Sbjct: 291 HSVLTIHTS 299

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

 Score =  129 bits (326), Expect = 1e-33
 Identities = 39/282 (13%), Positives = 63/282 (22%), Gaps = 31/282 (10%)

Query: 261 TMEDWRHARS---VVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFS 317
           T E     R    +    I  G T       W     +  L   L +             
Sbjct: 91  TREQMLTNRFNDLLDRMDIMFGSTGSADIEEWMAG--VAWLHCLLPKMDSVVYDFLKCMV 148

Query: 318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY-VGESEALLRNTF 376
              I   R  L  GP    KTTLA A          +++       + +G +       F
Sbjct: 149 Y-NIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAIDQFLVVF 207

Query: 377 QRARLAA------PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGI 430
           +  +         PS    +  D +     GS   ++        T +            
Sbjct: 208 EDVKGTGGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPP--------- 258

Query: 431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARH-EILRVHTRNMKVGDDVDLRSIA 489
             +   N             RF   +   P D      E         K      +  + 
Sbjct: 259 -GIVTMNE---YSVPKTLQARFVKQIDFRPKDYLKHCLERSEFLLE--KRIIQSGIALLL 312

Query: 490 EETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKD 531
                   AE     +   +                +Q +K 
Sbjct: 313 MLIWYRPVAEFAQSIQSRIVEWKE--RLDKEFSLSVYQKMKF 352

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

 Score =  116 bits (292), Expect = 4e-29
 Identities = 34/246 (13%), Positives = 67/246 (27%), Gaps = 22/246 (8%)

Query: 12  NEKWKAEEAIGGNRAAVEALREL---ITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTS 68
                    I    A V  L  L   +   +    +     +   R  L  GP  +GKT+
Sbjct: 110 MFGSTGSADIEEWMAGVAWLHCLLPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTT 169

Query: 69  LVRAVVRECGAHLTVIS-PHSVHKAHVGESEKALREAFSQA--SSHALSGKPSVVFIDEI 125
           L  A++  CG     ++ P       +G +       F     +       PS   I+ +
Sbjct: 170 LAAALLELCGGKALNVNLPLDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINNL 229

Query: 126 DALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRF 185
           D L    D   +  V +  +         P          + + N             RF
Sbjct: 230 DNLRDYLDGSVK--VNLEKKHLNKRTQIFP--------PGIVTMNE---YSVPKTLQARF 276

Query: 186 DAEVEVTVPTAEER-FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSA 244
             +++       +   E  +   +K  +     +  +         A+     +   +  
Sbjct: 277 VKQIDFRPKDYLKHCLERSEFLLEKRIIQ--SGIALLLMLIWYRPVAEFAQSIQSRIVEW 334

Query: 245 VKRSSD 250
            +R   
Sbjct: 335 KERLDK 340

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 246

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score =  124 bits (312), Expect = 6e-33
 Identities = 35/236 (14%), Positives = 80/236 (33%), Gaps = 13/236 (5%)

Query: 292 IGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS 351
           + G+      + + ++              +P+   LL GPP   KT LA   A  +   
Sbjct: 8   MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP 67

Query: 352 FFSLSGAELYSMYVGESEALL-RNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVG 410
           F  +   +    +   ++    +  F  A  +  S +  D+ + +               
Sbjct: 68  FIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGP----RFS 123

Query: 411 ERLLSTLLTEMDGL-EQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEI 469
             +L  LL  +     Q + +L++  T+R   +    M    F   ++V  P++    ++
Sbjct: 124 NLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEML-NAFSTTIHV--PNIATGEQL 180

Query: 470 LRVHTRNMKVGDDVDLRSIAEETE---LFTGAELEGLCREAGIVALREDISATAVR 522
           L           D +  +IA++ +   ++ G +   +  E  +    E      + 
Sbjct: 181 LEALELLGNF-KDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLA 235

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 246

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score =  116 bits (290), Expect = 6e-30
 Identities = 38/219 (17%), Positives = 74/219 (33%), Gaps = 13/219 (5%)

Query: 29  EALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS 88
           + +  ++    L   Q +         +LL GPP +GKT+L   +  E            
Sbjct: 16  DPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP---FIKIC 72

Query: 89  VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFT 148
                +G SE A  +A  +    A   + S V +D+I+ L             +   L  
Sbjct: 73  SPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLV 132

Query: 149 LMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK 208
           L+    P       ++++ +T+R D +         F   +   VP      ++L+    
Sbjct: 133 LLKKAPPQG---RKLLIIGTTSRKDVLQEMEML-NAFSTTIH--VPNIATGEQLLEALEL 186

Query: 209 KVPLDANVDLEAIATSCNG---YVGADLEALCREATMSA 244
                 + +   IA    G   ++G     +  E ++  
Sbjct: 187 LGNFK-DKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQM 224

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

 Score =  118 bits (297), Expect = 1e-30
 Identities = 30/275 (10%), Positives = 75/275 (27%), Gaps = 29/275 (10%)

Query: 297 DLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS 356
             + +L   +E  I+      +  +      LL G PG  KT+L  A     + +   + 
Sbjct: 10  QFENRLNDNLEELIQG-----KKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVID 64

Query: 357 G---AELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERL 413
                + +  +    +   ++  +     +  +     + +           +    +  
Sbjct: 65  NDTFKQQHPNFDELVKLYEKDVVKHVTPYSNRMTEAIISRLSDQGYNLVIEGTGRTTDVP 124

Query: 414 LSTL--------LTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEA 465
           + T          T+M  +   K    L    R   + A      R              
Sbjct: 125 IQTATMLQAKGYETKMYVMAVPKINSYLGTIERYETMYADDPMTARATPKQAHDIVVKNL 184

Query: 466 RHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRH 525
              +  +H     +  D+      E  +L++  E   +  +  +           V  + 
Sbjct: 185 PTNLETLH--KTGLFSDIR-LYNREGVKLYSSLETPSISPKETLEKELNR----KVSGKE 237

Query: 526 FQTVKDSLKPALTKE------EIDSYSSFMKSQSP 554
            Q   + ++  +         E  +    ++S  P
Sbjct: 238 IQPTLERIEQKMVLNKHQETPEFKAIQQKLESLQP 272

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

 Score =  117 bits (294), Expect = 3e-30
 Identities = 32/281 (11%), Positives = 79/281 (28%), Gaps = 37/281 (13%)

Query: 40  LYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH---VGE 96
           L      K  ++ P   LL G PG+GKTSL  A+  E   ++ VI   +  + H      
Sbjct: 19  LEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFKQQHPNFDEL 78

Query: 97  SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS 156
            +   ++     + +       +             +   E   R            +  
Sbjct: 79  VKLYEKDVVKHVTPY----SNRMTEAIISRLSDQGYNLVIEGTGRTTDVPIQTATMLQAK 134

Query: 157 KTSV--------PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK 208
                            + +  R + +      + R   +    +        +  L+  
Sbjct: 135 GYETKMYVMAVPKINSYLGTIERYETMYADDPMTARATPKQAHDIVVKNLPTNLETLHKT 194

Query: 209 KVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHA 268
            +  D  +           Y   +  ++  + T+                 V+ ++ +  
Sbjct: 195 GLFSDIRL---YNREGVKLYSSLETPSISPKETLEKELNR----------KVSGKEIQPT 241

Query: 269 RSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWP 309
              +   +      E P+         + +++KL ++++ P
Sbjct: 242 LERIEQKMVLNKHQETPE--------FKAIQQKL-ESLQPP 273

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

 Score = 96.6 bits (239), Expect = 4e-23
 Identities = 54/261 (20%), Positives = 91/261 (34%), Gaps = 29/261 (11%)

Query: 285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAA 344
           PK T ++  G   LK+KL+  +E               P+   LL GPPG  KTTLA   
Sbjct: 5   PK-TLDEYIGQERLKQKLRVYLEAAKARKE--------PLEHLLLFGPPGLGKTTLAHVI 55

Query: 345 AHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSS 404
           AH    +    SG  +     G+  A+L N+ +        I+F DE   +  +      
Sbjct: 56  AHELGVNLRVTSGPAI--EKPGDLAAILANSLEEG-----DILFIDEIHRLSRQAEEHLY 108

Query: 405 TSITVG--ERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPD 462
            ++     + ++           +     ++ AT RP  I A L+        L    P+
Sbjct: 109 PAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPE 168

Query: 463 LEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVR 522
             A+  +       +++ ++     I   +         G  R A     R       V 
Sbjct: 169 ELAQGVMRDARLLGVRITEE-AALEIGRRS--------RGTMRVA-KRLFRRVRDFAQVA 218

Query: 523 NRHFQTVKDSLKPALTKEEID 543
                T + +L+ AL    +D
Sbjct: 219 GEEVITRERALE-ALAALGLD 238

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

 Score = 89.2 bits (220), Expect = 1e-20
 Identities = 49/255 (19%), Positives = 85/255 (33%), Gaps = 31/255 (12%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
             G     + LR  +        +A K   +    LLL+GPPG GKT+L   +  E G +
Sbjct: 11  YIGQERLKQKLRVYL--------EAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN 62

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH--RREQ 138
           L V S  ++ K   G+    L  +           +  ++FIDEI  L  + +       
Sbjct: 63  LRVTSGPAIEK--PGDLAAILANSL---------EEGDILFIDEIHRLSRQAEEHLYPAM 111

Query: 139 DVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEE 198
           +  +   +     + +  +  +P   ++ +T R   I   L         +E   P    
Sbjct: 112 EDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELA 171

Query: 199 RFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVL 258
           +  +       V +     LE I     G +        R    + V          G  
Sbjct: 172 QGVMRDARLLGVRITEEAALE-IGRRSRGTMRVAKRLFRRVRDFAQVA---------GEE 221

Query: 259 SVTMEDWRHARSVVG 273
            +T E    A + +G
Sbjct: 222 VITRERALEALAALG 236

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 86.8 bits (214), Expect = 2e-19
 Identities = 56/303 (18%), Positives = 98/303 (32%), Gaps = 31/303 (10%)

Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKW-PRGLLLYGPPGTGKTSLVRAVVREC 77
           + I G   A  A+   +          + L  +  P+ +L+ GP G GKT + R + +  
Sbjct: 14  QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA 73

Query: 78  GAHLTVISPHSVHKAH--VGESEKALREAFSQAS-SHALSGKPSVVFIDEIDALCPRRDH 134
            A    +      +      E +  +R+    A  +     +  +VFIDEID +C + ++
Sbjct: 74  NAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEY 133

Query: 135 RREQ--DVRIASQLFTLMDSNKPSKTSVPHVVVVAS-----------TNRVDAIDPALRR 181
                    +   L  L++    S  S  H +V                R   + P L+ 
Sbjct: 134 SGADVSREGVQRDLLPLVE---GSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQ- 189

Query: 182 SGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREAT 241
            GR    VE+T  +A +   IL      +       +     +      A  +       
Sbjct: 190 -GRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFR 248

Query: 242 MSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGL----RD 297
           ++    +  A     V+   M+           S   G TV I      D  G      D
Sbjct: 249 VNEKTENIGARRLHTVMERLMDK-----ISFSASDMNGQTVNIDAAYVADALGEVVENED 303

Query: 298 LKK 300
           L +
Sbjct: 304 LSR 306

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 84.9 bits (209), Expect = 1e-18
 Identities = 51/269 (18%), Positives = 91/269 (33%), Gaps = 25/269 (9%)

Query: 283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGIS-PVRGALLHGPPGCSKTTLA 341
           EI     + I G  D K+ +  A+    +       L      +  L+ GP G  KT +A
Sbjct: 7   EIVSELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIA 66

Query: 342 KAAAHAAEASFFSLSGAELYSM--YVGESEALLRNTFQRA-----RLAAPSIIFFDEADV 394
           +  A  A A F  +   +   +     E ++++R+    A      +    I+F DE D 
Sbjct: 67  RRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDK 126

Query: 395 VGAKRGGSSSTSITVGERLLSTLLTEMDGLE--------QAKGILVLAATNRPHAIDAAL 446
           +  K   S +      E +   LL  ++G          +   IL +A+     A  + L
Sbjct: 127 ICKKGEYSGADV--SREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDL 184

Query: 447 MRP--GRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLC 504
           +    GR  + + +          IL     ++      +       TE    A      
Sbjct: 185 IPELQGRLPIRVELTALSAADFERILTEPHASL-----TEQYKALMATEGVNIAFTTDAV 239

Query: 505 REAGIVALREDISATAVRNRHFQTVKDSL 533
           ++    A R +     +  R   TV + L
Sbjct: 240 KKIAEAAFRVNEKTENIGARRLHTVMERL 268

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

 Score = 74.5 bits (181), Expect = 2e-15
 Identities = 32/282 (11%), Positives = 68/282 (24%), Gaps = 32/282 (11%)

Query: 275 SITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPG 334
           +I    +V  P    + +       ++L   +   +++              A L G PG
Sbjct: 1   AIVVDDSVFSPSYVPKRLPHREQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPG 53

Query: 335 CSKTTLAKAAAHA----AEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFD 390
             KT   +           A F  ++G    +      E          R       F  
Sbjct: 54  TGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLA 113

Query: 391 EADVVGAKRGGSSSTSITVGERL------LSTLLTEMDGLEQAKGILVLAATNRPHAIDA 444
                  +R       +     L          L +      A  I ++   +    ++ 
Sbjct: 114 LLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNN 173

Query: 445 ALMRPGRFDL--VLYVPPPDLEARHEILRVHTR---NMKVGDDVDLRSIAEETELFTGAE 499
                       V+   P   +   +IL    +         +  L+ IA+ T   T  +
Sbjct: 174 LDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLD 233

Query: 500 LEG--------LCREAGIVALREDISATAVRNRHFQTVKDSL 533
                      +   +   A +       +     +     +
Sbjct: 234 TNRGDARLAIDILYRSAYAAQQNG--RKHIAPEDVRKSSKEV 273

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

 Score = 73.3 bits (178), Expect = 6e-15
 Identities = 35/259 (13%), Positives = 69/259 (26%), Gaps = 31/259 (11%)

Query: 29  EALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS 88
           + L++L            +          L G PGTGKT  +R +        T    + 
Sbjct: 23  QQLQQLDIL----LGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYI 78

Query: 89  VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFT 148
               +   +      A S        G     F+  +      RD      +  A  L  
Sbjct: 79  NGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAP 138

Query: 149 LMDS------NKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPT--AEERF 200
            + S       +  K     + +V   +    ++     +     +  +       ++ F
Sbjct: 139 DILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIF 198

Query: 201 EILKLYTKKVPLDANVD---LEAIATSCNGYVGADLEA--------LCREATMSAVKRSS 249
           +IL    K    + +     L+ IA         D           +   +  +A +   
Sbjct: 199 DILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGR 258

Query: 250 DANECAGVLSVTMEDWRHA 268
                     +  ED R +
Sbjct: 259 K--------HIAPEDVRKS 269

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]} Length = 238

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

 Score = 66.9 bits (162), Expect = 4e-13
 Identities = 46/251 (18%), Positives = 80/251 (31%), Gaps = 34/251 (13%)

Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
             G     + L   +        +A K+  +    +LL GPPG GKT+L   +  E   +
Sbjct: 11  FIGQENVKKKLSLAL--------EAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN 62

Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD--HRREQ 138
           + V S        V   +  +    +         +  V+FIDEI  L    +       
Sbjct: 63  IHVTS------GPVLVKQGDMAAILTS------LERGDVLFIDEIHRLNKAVEELLYSAI 110

Query: 139 DVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEE 198
           +      +     S K  +  +    +V +T R   +   LR   RF   +E+   T +E
Sbjct: 111 EDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRS--RFGIILELDFYTVKE 168

Query: 199 RFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGV 257
             EI+K     + ++      E IA    G        L +          +D       
Sbjct: 169 LKEIIKRAASLMDVEIEDAAAEMIAKRSRGT-PRIAIRLTKRVRDMLTVVKAD------- 220

Query: 258 LSVTMEDWRHA 268
             +  +     
Sbjct: 221 -RINTDIVLKT 230

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]} Length = 238

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

 Score = 58.8 bits (141), Expect = 3e-10
 Identities = 46/232 (19%), Positives = 84/232 (36%), Gaps = 19/232 (8%)

Query: 285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAA 344
           PK + ++  G  ++KKKL  A+E           +        LL GPPG  KTTLA   
Sbjct: 5   PK-SLDEFIGQENVKKKLSLALEAAKMRGEVLDHV--------LLAGPPGLGKTTLAHII 55

Query: 345 AHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSS 404
           A   + +    SG  L     G+  A+L +  +   L    I   ++A     +    S+
Sbjct: 56  ASELQTNIHVTSGPVLVK--QGDMAAILTSLERGDVLFIDEIHRLNKA----VEELLYSA 109

Query: 405 TSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLE 464
                 + ++    +        +   ++ AT R   + + L    RF ++L +    ++
Sbjct: 110 IEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRS--RFGIILELDFYTVK 167

Query: 465 ARHEIL-RVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALRED 515
              EI+ R  +      +D     IA+ +   T      L +    +     
Sbjct: 168 ELKEIIKRAASLMDVEIEDAAAEMIAKRSR-GTPRIAIRLTKRVRDMLTVVK 218

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

 Score = 60.9 bits (146), Expect = 8e-11
 Identities = 38/274 (13%), Positives = 72/274 (26%), Gaps = 44/274 (16%)

Query: 28  VEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH 87
            EAL  +    LL  +    + +         G  G GKT+L +  V+            
Sbjct: 25  AEALARIYLNRLLSGAGLSDVNM----IYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLT 80

Query: 88  SVHKAHVGESEKALREAFSQASS-----------------------HALSGKPSVVFIDE 124
                    +   L    S                             +     +V +DE
Sbjct: 81  VKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDE 140

Query: 125 IDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGR 184
             ++        E D+    ++   + S          +V           +   +   +
Sbjct: 141 FQSMLSSPRIAAE-DLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQ 199

Query: 185 FDAEVEVTVPTAEERFEILKLYTKKVPLDANVD---LEAIATSCNGYVGADLEA-----L 236
              ++ +    + E + IL+   +    D   +   LE I+       G D  A      
Sbjct: 200 IGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSARRAIVA 259

Query: 237 CREATMSAVKRSSDANECAGVLSVTMEDWRHARS 270
            + A   A     D        S++ +  R A S
Sbjct: 260 LKMACEMAEAMGRD--------SLSEDLVRKAVS 285

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

 Score = 53.6 bits (127), Expect = 2e-08
 Identities = 25/272 (9%), Positives = 60/272 (22%), Gaps = 40/272 (14%)

Query: 290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE 349
            ++   R   + L +     +      S + +         G  G  KTTLAK       
Sbjct: 16  PELRVRRGEAEALARIYLNRLLSGAGLSDVNM----IYGSIGRVGIGKTTLAKFTVKRVS 71

Query: 350 ASFFS-------------------------LSGAELYSMYVGESEALLRNTFQRARLAAP 384
            +                            +          G     +            
Sbjct: 72  EAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVEN 131

Query: 385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDA 444
             +     +          +         +   +   DG+ +   +LV +       +  
Sbjct: 132 HYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMRE 191

Query: 445 ALMRP-GRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVD---LRSIAEETELFTGAE- 499
            + +   +    L++P       + IL             +   L  I++      G + 
Sbjct: 192 KIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDG 251

Query: 500 ----LEGLCREAGIVALREDISATAVRNRHFQ 527
                    + A  +A        ++     +
Sbjct: 252 SARRAIVALKMACEMAEAMG--RDSLSEDLVR 281

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 57.1 bits (136), Expect = 1e-09
 Identities = 31/221 (14%), Positives = 62/221 (28%), Gaps = 14/221 (6%)

Query: 13  EKWKAE--EAIGGNRAAVEALRELITFPLLYSSQAQ----KLGLKWPRGLLLYGPPGTGK 66
            K+     + + GN+ +V  L+  +         +     K G    R  +LYGPPG GK
Sbjct: 6   VKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGK 65

Query: 67  TSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEID 126
           T+    V +E      ++  ++            ++ A    S                 
Sbjct: 66  TTAAHLVAQEL--GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGK 123

Query: 127 ALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFD 186
                 D            +  L    + + T +  +    +  ++   D          
Sbjct: 124 HFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDRVCLDIQFRR 183

Query: 187 AEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNG 227
            +                   +K  LD NV ++ +  +  G
Sbjct: 184 PDANSIKSRLMTIAI-----REKFKLDPNV-IDRLIQTTRG 218

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 55.9 bits (133), Expect = 3e-09
 Identities = 33/214 (15%), Positives = 55/214 (25%), Gaps = 11/214 (5%)

Query: 285 PKVTWEDIGGLRDLKKKLQQAVE-WPIKHSTAFS---RLGISPVRGALLHGPPGCSKTTL 340
           P    + + G +    KL+  +  W      +F    + G    R A+L+GPPG  KTT 
Sbjct: 10  PT-NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTA 68

Query: 341 AKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRG 400
           A   A   E  +  L              A ++N      +      F    +       
Sbjct: 69  AHLVAQ--ELGYDILEQNASDVRSKTLLNAGVKNALDNMSV---VGYFKHNEEAQNLNGK 123

Query: 401 GSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPP 460
                   V               +  +                 +    R  L +    
Sbjct: 124 HFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDRVCLDIQFRR 183

Query: 461 PDLEARHEILRVHTRNMKVG-DDVDLRSIAEETE 493
           PD  +    L       K   D   +  + + T 
Sbjct: 184 PDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTR 217

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score = 52.1 bits (124), Expect = 5e-08
 Identities = 33/223 (14%), Positives = 63/223 (28%), Gaps = 48/223 (21%)

Query: 23  GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRE------ 76
           G    + AL   +           ++        L  G  G GKTS+ R + +       
Sbjct: 16  GQEHVLTALANGL--------SLGRI----HHAYLFSGTRGVGKTSIARLLAKGLNCETG 63

Query: 77  -----CGAHLTVISPHSVHKAHVGESEKA-------LREAFSQASSHALSGKPSVVFIDE 124
                CG               + E + A        R+           G+  V  IDE
Sbjct: 64  ITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDE 123

Query: 125 IDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGR 184
           +  L      R   +      L   ++  +P +    HV  + +T     +   +     
Sbjct: 124 VHML-----SRHSFNA-----LLKTLE--EPPE----HVKFLLATTDPQKLPVTILSRCL 167

Query: 185 FDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNG 227
                 + V     R ++  +  ++        L+ +A +  G
Sbjct: 168 QFHLKALDVEQ--IRHQLEHILNEEHIAHEPRALQLLARAAEG 208

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]} Length = 283

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

 Score = 46.7 bits (109), Expect = 4e-06
 Identities = 15/135 (11%), Positives = 43/135 (31%), Gaps = 1/135 (0%)

Query: 52  WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSH 111
                L+ G   TGK+S+++  + E       +      + +    +  L E   + +  
Sbjct: 28  RAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQKEINKL 87

Query: 112 ALSGKPSVVFIDEIDAL-CPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN 170
                  +  +  I  +     + +   + +       L++S + +      +V+  +  
Sbjct: 88  VKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQE 147

Query: 171 RVDAIDPALRRSGRF 185
            V      L  +  +
Sbjct: 148 LVKLRGVNLLPALAY 162

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score = 45.5 bits (106), Expect = 5e-06
 Identities = 29/203 (14%), Positives = 48/203 (23%), Gaps = 16/203 (7%)

Query: 39  LLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH-----SVHKAH 93
           L+ S QA +        LL+   PG G  +L+ A+ R                       
Sbjct: 14  LVASYQAGRG----HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQ 69

Query: 94  VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN 153
            G        A  +  +         V     +                           
Sbjct: 70  AGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALL 129

Query: 154 KPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD 213
           K  +          +T   + +   LR   R      +  P  +     L    ++V + 
Sbjct: 130 KTLEEPPAETWFFLATREPERLLATLRSRCRL---HYLAPPPEQYAVTWLS---REVTMS 183

Query: 214 ANVDLEAIATSCNGYVGADLEAL 236
            +  L A      G  GA L   
Sbjct: 184 QD-ALLAALRLSAGSPGAALALF 205

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]} Length = 247

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

 Score = 43.7 bits (103), Expect = 2e-05
 Identities = 34/166 (20%), Positives = 60/166 (36%), Gaps = 33/166 (19%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSG 115
           +L+ G  G GK  + R + +            +V        E  L      A + A+S 
Sbjct: 26  VLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGAVSS 85

Query: 116 KPS--------VVFIDEIDALCPRRDHRREQDVRIASQL----FTLMDSNKPSKTSVPHV 163
           K           +F+DEI  L        E   ++   +    F  +   K  + +   V
Sbjct: 86  KEGFFELADGGTLFLDEIGELSL------EAQAKLLRVIESGKFYRLGGRKEIEVN---V 136

Query: 164 VVVASTNRVDAIDP-ALRRSGRFDAE-------VEVTVPTAEERFE 201
            ++A+TNR    +   L + G+F  +       +E+ +P   ER E
Sbjct: 137 RILAATNR----NIKELVKEGKFREDLYYRLGVIEIEIPPLRERKE 178

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]} Length = 198

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 40.4 bits (94), Expect = 2e-04
 Identities = 6/77 (7%), Positives = 19/77 (24%), Gaps = 11/77 (14%)

Query: 56  LLLYGPPGTGKTSLVRAVVRECGAH------LTVISPHSVHKAHVGESEKALREAFSQAS 109
           +L+ G   +    +   +             +  I P       + +    +R      +
Sbjct: 18  ILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG-ENIGIDD----IRTIKDFLN 72

Query: 110 SHALSGKPSVVFIDEID 126
                     V + + +
Sbjct: 73  YSPELYTRKYVIVHDCE 89

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (90), Expect = 6e-04
 Identities = 12/76 (15%), Positives = 25/76 (32%)

Query: 54  RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHAL 113
           R +++ GP GTGK++L++ +  E           +      GE         S     ++
Sbjct: 2   RPIVISGPSGTGKSTLLKKLFAEYPDSFGFSVSSTTRTPRAGEVNGKDYNFVSVDEFKSM 61

Query: 114 SGKPSVVFIDEIDALC 129
                 +   +     
Sbjct: 62  IKNNEFIEWAQFSGNY 77

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.8 bits (91), Expect = 6e-04
 Identities = 25/144 (17%), Positives = 44/144 (30%), Gaps = 15/144 (10%)

Query: 13  EKWKAE--EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLV 70
           +K++ +   A+  N      L+ L   P            +    LLLYGP GTGK +  
Sbjct: 3   DKYRPKSLNALSHNEELTNFLKSLSDQP------------RDLPHLLLYGPNGTGKKTRC 50

Query: 71  RAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCP 130
            A++              V +     + K      S      ++    +   D I     
Sbjct: 51  MALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEIT-PSDMGNNDRIVIQEL 109

Query: 131 RRDHRREQDVRIASQLFTLMDSNK 154
            ++  + + V        L    K
Sbjct: 110 LKEVAQMEQVDFQDSKDGLAHRYK 133

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 38.6 bits (88), Expect = 0.001
 Identities = 13/62 (20%), Positives = 19/62 (30%), Gaps = 13/62 (20%)

Query: 285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAA 344
           PK +   +    +L   L+   + P                  LL+GP G  K T   A 
Sbjct: 7   PK-SLNALSHNEELTNFLKSLSDQPRDLP------------HLLLYGPNGTGKKTRCMAL 53

Query: 345 AH 346
             
Sbjct: 54  LE 55

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

 Score = 38.0 bits (87), Expect = 0.001
 Identities = 24/182 (13%), Positives = 60/182 (32%), Gaps = 14/182 (7%)

Query: 50  LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQAS 109
           LK  + + + G PG+GK +    +V++ G   T +S   + +A V       +       
Sbjct: 5   LKKSKIIFVVGGPGSGKGTQCEKIVQKYG--YTHLSTGDLLRAEVSSGSARGKMLSEIME 62

Query: 110 SHALSGKPSVVFIDEIDALCPR------RDHRREQDVRIASQLFTLMDSNKPSKTSVPHV 163
              L    +V+ +     +               ++V+   +    +             
Sbjct: 63  KGQLVPLETVLDMLRDAMVAKVDTSKGFLIDGYPREVKQGEEFERKIGQPTLLLYVDAGP 122

Query: 164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFE-ILKLYTKK---VPLDANVDLE 219
             +  T R+        R    +  ++  + T  +  E ++  Y K+     ++A   ++
Sbjct: 123 ETM--TKRLLKRGETSGRVDDNEETIKKRLETYYKATEPVIAFYEKRGIVRKVNAEGSVD 180

Query: 220 AI 221
            +
Sbjct: 181 DV 182

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 443

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 38.6 bits (89), Expect = 0.002
 Identities = 25/128 (19%), Positives = 42/128 (32%), Gaps = 10/128 (7%)

Query: 328 LLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSII 387
           L+ GP G  KT +A+  A  A A F  +   +     VG     + +  +    +A  ++
Sbjct: 53  LMIGPTGVGKTEIARRLAKLANAPFIKVEATKF--TEVGYVGKEVDSIIRDLTDSAMKLV 110

Query: 388 FFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALM 447
              E     A+            ER+L  LL                ++ R        +
Sbjct: 111 RQQEIAKNRAR------AEDVAEERILDALLPPAKNQWGEVENHDSHSSTRQA--FRKKL 162

Query: 448 RPGRFDLV 455
           R G+ D  
Sbjct: 163 REGQLDDK 170

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 37.8 bits (86), Expect = 0.002
 Identities = 27/136 (19%), Positives = 50/136 (36%), Gaps = 27/136 (19%)

Query: 13  EKWKAE--EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLV 70
           EK++ +  + +     AV  L++ +        ++  L       +L YGPPGTGKTS +
Sbjct: 4   EKYRPKNLDEVTAQDHAVTVLKKTL--------KSANLP-----HMLFYGPPGTGKTSTI 50

Query: 71  RAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALS------------GKPS 118
            A+ +E      + S      A        +RE     +   +S                
Sbjct: 51  LALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYK 110

Query: 119 VVFIDEIDALCPRRDH 134
           ++ +DE D++      
Sbjct: 111 IIILDEADSMTADAQS 126

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	611
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	100.0
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	100.0
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	100.0
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	100.0
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.94
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.92
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.88
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.88
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.87
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.86
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.84
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.83
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.83
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.83
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.8
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.8
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.79
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.78
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.76
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.74
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.73
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.72
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.72
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.72
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.7
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.7
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.7
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.69
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.66
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.64
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.62
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.62
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.62
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.61
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.58
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.57
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.57
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.56
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.54
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.53
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.53
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.51
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.5
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.49
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.49
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.49
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.48
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.48
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.47
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.46
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.45
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.34
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	99.33
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.27
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	99.27
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.25
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	99.02
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.87
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.83
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.79
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.75
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.48
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.19
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.13
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	98.03
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.89
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.87
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.78
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.77
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.74
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.69
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.68
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.67
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.66
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.66
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.63
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.63
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.6
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.59
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	97.56
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.55
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.55
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.53
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.52
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.51
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.5
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.5
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.46
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.45
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.44
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.43
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.4
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.4
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.37
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.37
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.37
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.36
d1tuea_	205	Replication protein E1 helicase domain {Human papi	97.34
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.33
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.33
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.33
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.32
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.28
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.28
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.28
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.27
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.27
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.25
d1okkd2	207	GTPase domain of the signal recognition particle r	97.23
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.23
d1okkd2	207	GTPase domain of the signal recognition particle r	97.23
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.23
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.2
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.2
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.19
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.17
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.17
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.17
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.16
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.15
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.14
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.13
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.1
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.1
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.09
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.08
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.08
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.07
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.06
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.02
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.99
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.99
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.99
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.98
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.98
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.98
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	96.97
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.97
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.96
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.94
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.94
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.94
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.92
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.91
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	96.9
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.88
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.87
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.86
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.84
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.83
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.83
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.81
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.8
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.8
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.78
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.73
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.71
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.71
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.68
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.66
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	96.65
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.63
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.61
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.61
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.6
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.57
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.56
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.56
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.54
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.53
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.49
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.48
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.44
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	96.44
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.43
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.32
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	96.3
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.3
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.25
d1tuea_	205	Replication protein E1 helicase domain {Human papi	96.24
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.21
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.2
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.18
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.16
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.16
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.11
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.04
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.04
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	96.02
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.0
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.99
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.95
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.94
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.9
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.89
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	95.87
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.86
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.84
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.83
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	95.73
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.71
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.69
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	95.69
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.46
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.43
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.38
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.31
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	95.29
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.28
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.27
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.26
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.24
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.2
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	95.19
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.17
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	95.16
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.16
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	95.16
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.13
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.09
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.05
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.02
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	94.98
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	94.94
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.91
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	94.86
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.84
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	94.79
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.77
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	94.65
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	94.64
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	94.55
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.55
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.52
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.46
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.44
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	94.39
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.34
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	94.29
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	94.25
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	94.2
d2awna2	232	Maltose transport protein MalK, N-terminal domain	94.09
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.07
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.03
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.01
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.01
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	94.0
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	93.99
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.96
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.96
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	93.96
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.94
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	93.79
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	93.76
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.73
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.71
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.7
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	93.66
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.62
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.59
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	93.53
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.51
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	93.5
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	93.49
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.48
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	93.47
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.47
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	93.45
d1g2912	240	Maltose transport protein MalK, N-terminal domain	93.43
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	93.42
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.41
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.37
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.34
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.33
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.32
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.3
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	93.27
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.26
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.26
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	93.21
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	93.21
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.2
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.19
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	93.17
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.14
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.13
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.12
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	93.1
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.08
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.06
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	93.02
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.98
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	92.9
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.9
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.9
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	92.88
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.86
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.81
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	92.77
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.72
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	92.71
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	92.67
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.64
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	92.64
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	92.61
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	92.61
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.58
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	92.57
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	92.57
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.56
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	92.55
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.47
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.42
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	92.38
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.38
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	92.37
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	92.36
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.35
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.34
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	92.34
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.3
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	92.22
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.21
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.19
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.17
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	92.14
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.11
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.1
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.08
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.04
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.04
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.0
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	91.99
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.98
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	91.98
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	91.97
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.96
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.95
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	91.94
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	91.93
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	91.91
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	91.9
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	91.86
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	91.85
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.83
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	91.81
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	91.8
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	91.75
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	91.73
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	91.64
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.54
d1xpua3	289	Transcription termination factor Rho, ATPase domai	91.51
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	91.46
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	91.43
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.42
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	91.38
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	91.34
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	91.31
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.28
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	91.24
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.19
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.17
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	91.13
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	91.04
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	91.03
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.02
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	90.99
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	90.93
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	90.85
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	90.84
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	90.84
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	90.81
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	90.78
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	90.77
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	90.65
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	90.58
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	90.57
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.56
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	90.56
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	90.51
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	90.49
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	90.33
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	90.31
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	90.3
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	90.29
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	90.26
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	90.21
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	90.17
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.16
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	90.15
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	90.08
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	90.04
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	89.96
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	89.91
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	89.89
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	89.87
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	89.86
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	89.85
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	89.83
d1nrjb_	209	Signal recognition particle receptor beta-subunit	89.83
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	89.66
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	89.66
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	89.63
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	89.62
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	89.45
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	89.4
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	89.38
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	89.33
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	89.32
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	89.25
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	89.09
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	89.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	88.95
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	88.91
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	88.84
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	88.81
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	88.79
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	88.78
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	88.72
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	88.69
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	88.68
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	88.67
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	88.62
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	88.6
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	88.54
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	88.51
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	88.42
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	88.39
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	88.24
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	88.22
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	88.21
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	88.18
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	88.09
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	87.97
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	87.85
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	87.73
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	87.73
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	87.72
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	87.6
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	87.54
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	87.2
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.2
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	87.13
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	87.08
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	87.08
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	87.04
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	86.68
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	86.65
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	86.54
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	86.43
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	86.38
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	86.34
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	86.33
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	86.26
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	86.17
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	86.1
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	85.87
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	85.2
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	85.0
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	84.98
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	84.7
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	84.57
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	84.25
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	83.98
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	83.87
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	83.56
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	83.53
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	83.52
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	82.89
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	82.86
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	82.74
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	82.71
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	82.49
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	82.27
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	82.23
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	82.08
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	81.87
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	81.67
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	81.55
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	81.31
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	80.74
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	80.55
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	80.37
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	80.01

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1e-46  Score=367.52  Aligned_cols=249  Identities=40%  Similarity=0.677  Sum_probs=228.1

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      .+.++++|+||+|++++|++|.+.+.+ +.+++.+.++|..+++++|||||||||||++|+++|++++.+++.++++++.
T Consensus         4 ~~~~~~t~~Di~Gl~~~k~~l~e~v~~-~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~   82 (256)
T d1lv7a_           4 EDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFV   82 (256)
T ss_dssp             ECSSCCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSST
T ss_pred             CCCCCCCHHHHhchHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhh
Confidence            345789999999999999999998875 7888999999999999999999999999999999999999999999999999


Q ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc
Q 007255          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA  441 (611)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~  441 (611)
                      ++|+|+++..++.+|+.|+...||||||||+|.++++|+...........+++++|+..||++...++++||+|||+|+.
T Consensus        83 ~~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~  162 (256)
T d1lv7a_          83 EMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDV  162 (256)
T ss_dssp             TSCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTT
T ss_pred             hcchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccc
Confidence            99999999999999999999999999999999999988766665556677899999999999988889999999999999


Q ss_pred             cchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccc
Q 007255          442 IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAV  521 (611)
Q Consensus       442 ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i  521 (611)
                      +|++++|||||++.|+|++|+.++|.+||+.++++.+...++++..+++.|+|||++||..+|++|+..+.++.  .+.+
T Consensus       163 ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adi~~l~~~A~~~a~~~~--~~~i  240 (256)
T d1lv7a_         163 LDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGN--KRVV  240 (256)
T ss_dssp             SCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT--CSSB
T ss_pred             CCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcC--CCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999998888764  5679


Q ss_pred             cHHHHHHHHhhc
Q 007255          522 RNRHFQTVKDSL  533 (611)
Q Consensus       522 ~~~~~~~~l~~~  533 (611)
                      +..||..|++++
T Consensus       241 ~~~d~~~Al~rv  252 (256)
T d1lv7a_         241 SMVEFEKAKDKI  252 (256)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            999999999765

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=3e-46  Score=362.97  Aligned_cols=244  Identities=41%  Similarity=0.704  Sum_probs=222.4

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      -|+++|+||+|++++|+.|++.+.. +.+++.+.++|..+++++|||||||||||++|+++|++++++++.++++++.++
T Consensus         3 ~p~~~~~di~G~~~~k~~l~~~i~~-l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~   81 (247)
T d1ixza_           3 APKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM   81 (247)
T ss_dssp             CCSCCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHS
T ss_pred             CCCCcHHHHccHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhc
Confidence            4789999999999999999998764 889999999999999999999999999999999999999999999999999999


Q ss_pred             cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccc
Q 007255          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAID  443 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld  443 (611)
                      |+|++++.++.+|+.|+..+||||||||+|.++++++...+.......+++++|++.|+++...++++||+|||+|+.+|
T Consensus        82 ~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld  161 (247)
T d1ixza_          82 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILD  161 (247)
T ss_dssp             CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSC
T ss_pred             cccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccC
Confidence            99999999999999999999999999999999998876555555566789999999999998889999999999999999


Q ss_pred             hhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccH
Q 007255          444 AALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRN  523 (611)
Q Consensus       444 ~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~  523 (611)
                      ++++|||||+.+|+|+.|+.++|.+||+.++++.+...++++..+|+.|+|||++||.++|++|+..|.++.  .+.++.
T Consensus       162 ~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~~~~la~~t~g~s~~di~~lv~~A~l~a~~~~--~~~i~~  239 (247)
T d1ixza_         162 PALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG--RRKITM  239 (247)
T ss_dssp             GGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT--CSSBCH
T ss_pred             HhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcC--CCCcCH
Confidence            999999999999999999999999999999999998899999999999999999999999999999888765  567999


Q ss_pred             HHHHHHH
Q 007255          524 RHFQTVK  530 (611)
Q Consensus       524 ~~~~~~l  530 (611)
                      +||..|+
T Consensus       240 ~d~~~A~  246 (247)
T d1ixza_         240 KDLEEAA  246 (247)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhh
Confidence            9999886

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=2.5e-44  Score=353.49  Aligned_cols=242  Identities=44%  Similarity=0.719  Sum_probs=223.9

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccccc
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVG  366 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g  366 (611)
                      ++|+||+|++.+|+.|++.+..|+.+++.+.++|..+++|+|||||||||||++|+++|++++.+++.++++++.+.|.|
T Consensus         1 ~~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g   80 (258)
T d1e32a2           1 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAG   80 (258)
T ss_dssp             CCGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTT
T ss_pred             CChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcccccc
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhc
Q 007255          367 ESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAAL  446 (611)
Q Consensus       367 ~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al  446 (611)
                      ..+..++.+|+.|+..+||||||||+|.++++++...+   ....++.+.++..+++....++++||+|||+|+.+|+++
T Consensus        81 ~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~---~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al  157 (258)
T d1e32a2          81 ESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHG---EVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPAL  157 (258)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCC---TTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGG
T ss_pred             cHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCC---chHHHHHHHhccccccccccCCccEEEeCCCccccchhh
Confidence            99999999999999999999999999999988754332   335678899999999988899999999999999999999


Q ss_pred             cCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhc----------
Q 007255          447 MRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDI----------  516 (611)
Q Consensus       447 ~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~----------  516 (611)
                      +|||||+++|+|+.|+.++|.+||+.++++.+...++++..||+.|+|||++||.++|++|...|+++..          
T Consensus       158 ~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adl~~lv~~A~~~a~~~~~~~~~~~~~~~  237 (258)
T d1e32a2         158 RRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI  237 (258)
T ss_dssp             TSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCCHHHHHHHCTTCCHHHHHHHHHHHHHHHHHHHHHHHCCCSSCC
T ss_pred             hhcccccceeECCCCCHHHHHHHhhhhccCcccccccchhhhhhcccCCCHHHHHHHHHHHHHHHHHhhccccchhhhhh
Confidence            9999999999999999999999999999999988899999999999999999999999999999887753          


Q ss_pred             -----ccccccHHHHHHHHh
Q 007255          517 -----SATAVRNRHFQTVKD  531 (611)
Q Consensus       517 -----~~~~i~~~~~~~~l~  531 (611)
                           ...+++.+||..||.
T Consensus       238 ~~~~~~~~~it~~Df~~AL~  257 (258)
T d1e32a2         238 DAEVMNSLAVTMDDFRWALS  257 (258)
T ss_dssp             BHHHHHHCCBCHHHHHHHHT
T ss_pred             hhhhhccCccCHHHHHHHhC
Confidence                 224577788888774

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4.8e-43  Score=345.16  Aligned_cols=233  Identities=46%  Similarity=0.864  Sum_probs=210.7

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      +|.++|+||+|+++++++|.+.+..|+.+++.+.++|.++++|+|||||||||||++|+++|++++.+++.++++++.+.
T Consensus         1 ~p~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~   80 (265)
T d1r7ra3           1 VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTM   80 (265)
T ss_dssp             CCCCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTS
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhc
Confidence            47889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccc
Q 007255          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAID  443 (611)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld  443 (611)
                      +.|+.+..++.+|..|+...||||||||+|.++.+++...+.......++++.|++.|+++....+++||+|||.|+.+|
T Consensus        81 ~~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld  160 (265)
T d1r7ra3          81 WFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIID  160 (265)
T ss_dssp             CTTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTS
T ss_pred             cccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCC
Confidence            99999999999999999999999999999999988765555555556778999999999988888899999999999999


Q ss_pred             hhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhc
Q 007255          444 AALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDI  516 (611)
Q Consensus       444 ~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~  516 (611)
                      ++++|+|||+++|+|+.|+.++|.+||+.++++.....+++++.+++.|+|||++||..+|++|...|.++.+
T Consensus       161 ~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~l~~la~~t~g~s~~di~~lv~~A~~~A~~~~~  233 (265)
T d1r7ra3         161 PAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESI  233 (265)
T ss_dssp             CGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCCCHHHHHHHCSSCCHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhhHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999998888899999999999999999999999999999987764

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=1.7e-37  Score=301.01  Aligned_cols=241  Identities=36%  Similarity=0.580  Sum_probs=209.4

Q ss_pred             cccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccc
Q 007255            9 SEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (611)
Q Consensus         9 ~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~   88 (611)
                      +.+++.|   ++|+|++++|+.|++.+. ++..++.+.++|.++|+++||+||||||||++++++|++++.+++.+++++
T Consensus         2 ~~p~~~~---~di~G~~~~k~~l~~~i~-~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~   77 (247)
T d1ixza_           2 EAPKVTF---KDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSD   77 (247)
T ss_dssp             CCCSCCG---GGCCSCHHHHHHHHHHHH-HHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CCCCCcH---HHHccHHHHHHHHHHHHH-HHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHH
Confidence            4566667   899999999999999775 478888999999999999999999999999999999999999999999999


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC----chhhHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        89 ~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~----~~~~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      +.+.+.|+++..++++|+.+...    .||||||||+|.++..++..    +.....+++.|+..++....    ..+|+
T Consensus        78 l~~~~~g~~~~~l~~~f~~a~~~----~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~----~~~vi  149 (247)
T d1ixza_          78 FVEMFVGVGAARVRDLFETAKRH----APCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK----DTAIV  149 (247)
T ss_dssp             HHHSCTTHHHHHHHHHHHHHTTS----SSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT----TCCEE
T ss_pred             hhhccccHHHHHHHHHHHHHHHc----CCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC----CCCEE
Confidence            99999999999999999988654    59999999999998765422    23344678888999987543    23689


Q ss_pred             EEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHH
Q 007255          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSA  244 (611)
Q Consensus       165 ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a  244 (611)
                      +|+|||.++.+|++++|++||+.+|+|++|+.++|.+|++.++.......+.++..++..|+||+++||.++|++|...+
T Consensus       150 vi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~~~~la~~t~g~s~~di~~lv~~A~l~a  229 (247)
T d1ixza_         150 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLA  229 (247)
T ss_dssp             EEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHH
T ss_pred             EEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccCHHHHHHHCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999888888889999999999999999999999999888


Q ss_pred             hhhcccccccccccchhHHHHHHHH
Q 007255          245 VKRSSDANECAGVLSVTMEDWRHAR  269 (611)
Q Consensus       245 ~~r~~~~~~~~~~~~v~~ed~~~a~  269 (611)
                      +++..        ..++.+|+..|.
T Consensus       230 ~~~~~--------~~i~~~d~~~A~  246 (247)
T d1ixza_         230 AREGR--------RKITMKDLEEAA  246 (247)
T ss_dssp             HHTTC--------SSBCHHHHHHHT
T ss_pred             HHcCC--------CCcCHHHHHHhh
Confidence            76543        247888887764

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=3.8e-37  Score=299.58  Aligned_cols=239  Identities=36%  Similarity=0.574  Sum_probs=206.3

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~   96 (611)
                      +++||+|+++++++|.+.+.. +.+++.+.++|.++|+++||+||||||||++|+++|++++.+++.++++++.+.+.|+
T Consensus        10 t~~Di~Gl~~~k~~l~e~v~~-~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~~~g~   88 (256)
T d1lv7a_          10 TFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGV   88 (256)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHH-HHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCC
T ss_pred             CHHHHhchHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhcchhH
Confidence            349999999999999998765 7788888999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC----chhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCc
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV  172 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~----~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~  172 (611)
                      ++..++.+|+.+...    .||||||||+|.+++.++..    .....++..+++..++.....    .++++|+|||.+
T Consensus        89 ~~~~l~~~f~~A~~~----~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~----~~v~vIatTn~~  160 (256)
T d1lv7a_          89 GASRVRDMFEQAKKA----APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN----EGIIVIAATNRP  160 (256)
T ss_dssp             CHHHHHHHHHHHHTT----CSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS----SCEEEEEEESCT
T ss_pred             HHHHHHHHHHHHHHc----CCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCC----CCEEEEEeCCCc
Confidence            999999999998754    59999999999998865432    223446778899999876432    369999999999


Q ss_pred             ccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccccc
Q 007255          173 DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN  252 (611)
Q Consensus       173 ~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~  252 (611)
                      +.+|++++|++||+..|+|++|+.++|.+|++.++.+.....+.++..++..|+||+++||..++++|+..+.++..   
T Consensus       161 ~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adi~~l~~~A~~~a~~~~~---  237 (256)
T d1lv7a_         161 DVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGNK---  237 (256)
T ss_dssp             TTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTC---
T ss_pred             ccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCC---
Confidence            99999999999999999999999999999999999999988889999999999999999999999999988876432   


Q ss_pred             ccccccchhHHHHHHHHhcc
Q 007255          253 ECAGVLSVTMEDWRHARSVV  272 (611)
Q Consensus       253 ~~~~~~~v~~ed~~~a~~~i  272 (611)
                           ..++.+|+..|..++
T Consensus       238 -----~~i~~~d~~~Al~rv  252 (256)
T d1lv7a_         238 -----RVVSMVEFEKAKDKI  252 (256)
T ss_dssp             -----SSBCHHHHHHHHHHH
T ss_pred             -----CccCHHHHHHHHHHH
Confidence                 246788888887654

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4.6e-37  Score=301.33  Aligned_cols=246  Identities=46%  Similarity=0.766  Sum_probs=213.5

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~   96 (611)
                      .+++|+|++++|+.|++.+..|+.+++.+.+.|.++|+++||+||||||||++++++|++++.+++.++++++...+.|.
T Consensus         2 ~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g~   81 (258)
T d1e32a2           2 GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE   81 (258)
T ss_dssp             CGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTTH
T ss_pred             ChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhccccccc
Confidence            35899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC-chhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccc
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l  175 (611)
                      ....++.+|..+...    +||||||||+|.+++.++.. ++....+...++..++....    ..++++|+|||.++.+
T Consensus        82 ~~~~l~~~f~~A~~~----~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~----~~~vlvi~tTn~~~~l  153 (258)
T d1e32a2          82 SESNLRKAFEEAEKN----APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQ----RAHVIVMAATNRPNSI  153 (258)
T ss_dssp             HHHHHHHHHHHHHHT----CSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCC----SSCEEEEEEESCGGGS
T ss_pred             HHHHHHHHHHHHHhc----CCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccc----cCCccEEEeCCCcccc
Confidence            999999999998755    59999999999999876432 33445667777777775432    3369999999999999


Q ss_pred             cHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccccc---
Q 007255          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN---  252 (611)
Q Consensus       176 ~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~~~---  252 (611)
                      |++++|+|||+.+|+|+.|+.++|.+|++.++++.....+.++..++..|+||+++||.++|++|...++++.....   
T Consensus       154 d~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adl~~lv~~A~~~a~~~~~~~~~~~  233 (258)
T d1e32a2         154 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLE  233 (258)
T ss_dssp             CGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCCHHHHHHHCTTCCHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred             chhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccchhhhhhcccCCCHHHHHHHHHHHHHHHHHhhccccchh
Confidence            99999999999999999999999999999999988888888999999999999999999999999998887643211   


Q ss_pred             ------ccccccchhHHHHHHHHh
Q 007255          253 ------ECAGVLSVTMEDWRHARS  270 (611)
Q Consensus       253 ------~~~~~~~v~~ed~~~a~~  270 (611)
                            +......++++||..|..
T Consensus       234 ~~~~~~~~~~~~~it~~Df~~AL~  257 (258)
T d1e32a2         234 DETIDAEVMNSLAVTMDDFRWALS  257 (258)
T ss_dssp             SSCCBHHHHHHCCBCHHHHHHHHT
T ss_pred             hhhhhhhhhccCccCHHHHHHHhC
Confidence                  111234467778877654

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=3.9e-35  Score=288.27  Aligned_cols=226  Identities=36%  Similarity=0.615  Sum_probs=194.7

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~   96 (611)
                      +|++|+|++++++.|.+.+..|+.+++.+.+.|..+++++||+||||||||++++++|.+++.+++.++++++.+.+.+.
T Consensus         5 ~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~~~   84 (265)
T d1r7ra3           5 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGE   84 (265)
T ss_dssp             SCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCTTT
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccccc
Confidence            45999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC----chhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCc
Q 007255           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV  172 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~----~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~  172 (611)
                      ....++.+|..+...    .||||+|||+|.++..++..    .....++.+.++..++....    ..++++|+|||.+
T Consensus        85 ~~~~l~~~f~~A~~~----~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~----~~~v~vi~ttn~~  156 (265)
T d1r7ra3          85 SEANVREIFDKARQA----APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST----KKNVFIIGATNRP  156 (265)
T ss_dssp             HHHHHHHHHHHHHHT----CSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC----------CCEEEECCBSC
T ss_pred             hHHHHHHHHHHHHhc----CCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCC----CCCEEEEEeCCCc
Confidence            999999999998765    49999999999999764321    22233466777777765432    2258999999999


Q ss_pred             ccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhhccc
Q 007255          173 DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD  250 (611)
Q Consensus       173 ~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r~~~  250 (611)
                      +.+|++++|++||+.+|+|+.|+.++|.+||+.++++.....+.++..++..|+||+++||..+|++|...++++...
T Consensus       157 ~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~l~~la~~t~g~s~~di~~lv~~A~~~A~~~~~~  234 (265)
T d1r7ra3         157 DIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIE  234 (265)
T ss_dssp             TTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCCCHHHHHHHCSSCCHHHHHHHHHHHHHHHHHC--
T ss_pred             hhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhhHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999888878889999999999999999999999999998876543

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=99.94  E-value=6.9e-30  Score=252.63  Aligned_cols=168  Identities=17%  Similarity=0.172  Sum_probs=138.4

Q ss_pred             ccCCChhHHhhcCCCCCCCcce-eCCCCCChHHHHHHHHHHhC--CcEEeecchhhccccccchHHHHHHHHHHHHhcCC
Q 007255          308 WPIKHSTAFSRLGISPVRGALL-HGPPGCSKTTLAKAAAHAAE--ASFFSLSGAELYSMYVGESEALLRNTFQRARLAAP  384 (611)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~~~Ll-~Gp~G~GKT~la~ala~~~~--~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p  384 (611)
                      ++...+..+..++.+.++|++| |||||||||++|+++|.+++  .+|+.++++++.++|+|+++.+++.+|+.++.  |
T Consensus       106 ~~~~~~~~~~~~~~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~--~  183 (321)
T d1w44a_         106 LVGCSPVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ--H  183 (321)
T ss_dssp             CCSBCCEEEEETTEEEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH--C
T ss_pred             ccccchHHHHHhhcccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhh--c
Confidence            3445667777777777777655 89999999999999999986  78999999999999999999999999999985  8


Q ss_pred             cEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCC---CcccchhccCCCCccceeecCCC
Q 007255          385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNR---PHAIDAALMRPGRFDLVLYVPPP  461 (611)
Q Consensus       385 ~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~---~~~ld~al~r~gRf~~~i~~~~p  461 (611)
                      |||||||||++.++|+...+  .....+.+++||.+||++....+++||+|||+   ++.+|++++|||||+..++++.|
T Consensus       184 ~ilf~DEid~~~~~r~~~~~--~~~~~r~v~~lL~e~dg~~~~~~v~viaatN~~~~~~~i~~~~~r~~Rf~~~v~v~~p  261 (321)
T d1w44a_         184 RVIVIDSLKNVIGAAGGNTT--SGGISRGAFDLLSDIGAMAASRGCVVIASLNPTSNDDKIVELVKEASRSNSTSLVIST  261 (321)
T ss_dssp             SEEEEECCTTTC-------------CCHHHHHHHHHHHHHHHHHTCEEEEECCCCCCCHHHHHHHHHHHHHSCSEEEEEC
T ss_pred             cEEEeehhhhhccccccCCC--CCcchhhhhhhhhhccccccCCCeEEEEeCCCcccccchhhhhhccCcccceeecCCC
Confidence            89999999999999864333  23446899999999999988889999999995   23577788899999999999999


Q ss_pred             CHHHHHHHHHHHhcCCCC
Q 007255          462 DLEARHEILRVHTRNMKV  479 (611)
Q Consensus       462 ~~~~r~~il~~~~~~~~~  479 (611)
                      |.+.|.+|++.+.+++..
T Consensus       262 d~~~r~~il~~~~~~~~~  279 (321)
T d1w44a_         262 DVDGEWQVLTRTGEGLQR  279 (321)
T ss_dssp             SSTTEEEEEEECBTTCCE
T ss_pred             ChHHHHHHHHHhccCccc
Confidence            999999999877776653

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.92  E-value=1.4e-25  Score=216.77  Aligned_cols=169  Identities=18%  Similarity=0.242  Sum_probs=131.1

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccch-HHHHHHHHHHHHhcCCcEEEEccccccccc
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGES-EALLRNTFQRARLAAPSIIFFDEADVVGAK  398 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~-~~~~~~~~~~a~~~~p~il~iDeid~l~~~  398 (611)
                      ...|++++|||||||||||++|+++|++++.+++.++.++....+.+.. .+.++.+|+.|+..+||||||||+|.+++.
T Consensus        36 ~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~~~~~i~~if~~A~~~~p~il~iDEid~l~~~  115 (246)
T d1d2na_          36 DRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDY  115 (246)
T ss_dssp             SSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTC
T ss_pred             CCCCCeEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccchhhhhhhhhhhhhhcccceeehhhhhhHhhh
Confidence            3456789999999999999999999999999999999988777776655 467999999999999999999999999876


Q ss_pred             CCCCCCCCcchhHHHHHHHHHHhcCCCCC-CCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCC
Q 007255          399 RGGSSSTSITVGERLLSTLLTEMDGLEQA-KGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNM  477 (611)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~ll~~l~~~~~~-~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~  477 (611)
                      +...    ....++++++|+..|++.... .+++||+|||+|+.+|++.++ +||+..|++|.  ..+|.+|++..... 
T Consensus       116 ~~~~----~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn~~~~ld~~~~~-~rF~~~i~~P~--~~~r~~il~~l~~~-  187 (246)
T d1d2na_         116 VPIG----PRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEML-NAFSTTIHVPN--IATGEQLLEALELL-  187 (246)
T ss_dssp             BTTT----TBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCT-TTSSEEEECCC--EEEHHHHHHHHHHH-
T ss_pred             cccc----cchhHHHHHHHHHHhcCCCccccceeeeeccCChhhccchhhc-CccceEEecCC--chhHHHHHHHHHhc-
Confidence            5432    123467889999999987543 468999999999999876554 59999999854  33455555533222 


Q ss_pred             CCCCcccHHHHHHhCCCCC
Q 007255          478 KVGDDVDLRSIAEETELFT  496 (611)
Q Consensus       478 ~~~~~~~~~~la~~~~g~s  496 (611)
                      ....+.++..+++.+.|.+
T Consensus       188 ~~~~~~~~~~i~~~~~g~~  206 (246)
T d1d2na_         188 GNFKDKERTTIAQQVKGKK  206 (246)
T ss_dssp             TCSCHHHHHHHHHHHTTSE
T ss_pred             cCCChHHHHHHHHHcCCCc
Confidence            2234556777887777643

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=99.88  E-value=7.7e-22  Score=190.59  Aligned_cols=213  Identities=21%  Similarity=0.247  Sum_probs=159.0

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccc
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~  365 (611)
                      +.+|++++|++++++.|..++..+..        ...+..++|||||||||||++|+++|+++++++..+++.+...   
T Consensus         5 P~~~~divGqe~~~~~l~~~i~~~~~--------~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~---   73 (238)
T d1in4a2           5 PKSLDEFIGQENVKKKLSLALEAAKM--------RGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVK---   73 (238)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHHHH--------HTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCS---
T ss_pred             CCcHHHcCChHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCccccc---
Confidence            44899999999999999999864211        1234568999999999999999999999999999998877643   


Q ss_pred             cchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC----------------CCCCC
Q 007255          366 GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL----------------EQAKG  429 (611)
Q Consensus       366 g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~----------------~~~~~  429 (611)
                         ...+..++..  ....+++||||+|.+...              ..+.++..++..                ....+
T Consensus        74 ---~~~~~~~~~~--~~~~~~~~ide~~~~~~~--------------~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  134 (238)
T d1in4a2          74 ---QGDMAAILTS--LERGDVLFIDEIHRLNKA--------------VEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQP  134 (238)
T ss_dssp             ---HHHHHHHHHH--CCTTCEEEEETGGGCCHH--------------HHHHHHHHHHTSCCCC---------------CC
T ss_pred             ---HHHHHHHHHh--hccCCchHHHHHHHhhhH--------------HHhhcccceeeeeeeeeecCcccccccccCCCC
Confidence               2233333332  244579999999988422              223333333221                12347


Q ss_pred             eEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCc-ccHHHHHHhCCCCCHHHHHHHHHHHH
Q 007255          430 ILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDD-VDLRSIAEETELFTGAELEGLCREAG  508 (611)
Q Consensus       430 ~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~g~s~~~i~~~~~~a~  508 (611)
                      +++|++||++..+++++++  ||...+.++.|+.+++..+++..........+ ..+..+++.+.| +.+.+.++++.+.
T Consensus       135 ~~~I~at~~~~~~~~~~~~--r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~s~g-d~R~ai~~l~~~~  211 (238)
T d1in4a2         135 FTLVGATTRSGLLSSPLRS--RFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRG-TPRIAIRLTKRVR  211 (238)
T ss_dssp             CEEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTT-CHHHHHHHHHHHH
T ss_pred             eEEEEecCCCcccccccee--eeeEEEEecCCCHHHHHHHHHHhhhhccchhhHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            8999999999999999999  99999999999999999999988776665533 448889998887 7888888888776


Q ss_pred             HHHHHhhcccccccHHHHHHHHhhc
Q 007255          509 IVALREDISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       509 ~~a~~~~~~~~~i~~~~~~~~l~~~  533 (611)
                      ..+....  ...++.+....++..+
T Consensus       212 ~~~~~~~--~~~it~~~~~~al~~l  234 (238)
T d1in4a2         212 DMLTVVK--ADRINTDIVLKTMEVL  234 (238)
T ss_dssp             HHHHHHT--CSSBCHHHHHHHHHHH
T ss_pred             HHHHHhc--CCccCHHHHHHHHHhh
Confidence            6554443  3457888888887654

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.88  E-value=2.9e-23  Score=207.85  Aligned_cols=177  Identities=23%  Similarity=0.274  Sum_probs=138.5

Q ss_pred             ccchhHHHHHHHHHhhccCCChhHHhhc-CCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc--ccccch
Q 007255          292 IGGLRDLKKKLQQAVEWPIKHSTAFSRL-GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS--MYVGES  368 (611)
Q Consensus       292 i~g~~~~k~~l~~~~~~~~~~~~~~~~~-~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~--~~~g~~  368 (611)
                      |+||+++++.+..++..++++....... ...|++++||+||||||||.+|+++|++++.+++.++++++..  .+.|.+
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~~   95 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEV   95 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGST
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeeec
Confidence            7899999999998874433222111110 1236789999999999999999999999999999999999974  478999


Q ss_pred             HHHHHHHHHHHHh-----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC--------CCCeEEEEe
Q 007255          369 EALLRNTFQRARL-----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ--------AKGILVLAA  435 (611)
Q Consensus       369 ~~~~~~~~~~a~~-----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--------~~~~~vI~~  435 (611)
                      +..++.+|..++.     .+||||||||+|++.+.+....  .......++++||..+|+...        .+++++|++
T Consensus        96 ~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~--~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~ilfi~~  173 (309)
T d1ofha_          96 DSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSG--ADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIAS  173 (309)
T ss_dssp             THHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCS--SHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEE
T ss_pred             cccccccchhhhcccccccCCceEEehhhhhhhhhccCcc--cchhhhHHHHHhhHHhcCCEEecCCeEEEccceeEEec
Confidence            9999999998754     3578999999999987654332  222334578899999997431        335677765


Q ss_pred             ----cCCCcccchhccCCCCccceeecCCCCHHHHHHHHHH
Q 007255          436 ----TNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRV  472 (611)
Q Consensus       436 ----tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~  472 (611)
                          ++.|+.++|++++  ||+.++.|+.|+..++.+|++.
T Consensus       174 ga~~~~~~~~~~p~l~~--R~~~~i~~~~~~~~~~~~Il~~  212 (309)
T d1ofha_         174 GAFQVARPSDLIPELQG--RLPIRVELTALSAADFERILTE  212 (309)
T ss_dssp             ECCSSSCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHS
T ss_pred             cchhhcCcccchhhhhh--hhheeeeccCCCHHHHHHHHHH
Confidence                5778888898886  9999999999999999999873

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.87  E-value=2.3e-22  Score=194.00  Aligned_cols=197  Identities=19%  Similarity=0.210  Sum_probs=140.0

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccch-
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGES-   97 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~-   97 (611)
                      +.|+|..+.++.+.+......   +..+.....++.++||+||||||||++|+++|++++.+++.+++++....+.+.. 
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~---~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~~   85 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLV---QQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAK   85 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHH---HHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHH---HHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccch
Confidence            457787776666655444322   2223333456789999999999999999999999999999999887655544443 


Q ss_pred             HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccH
Q 007255           98 EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDP  177 (611)
Q Consensus        98 ~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~  177 (611)
                      ...++++|+.+...    .||||||||+|.+++..+.+......+...++..++.....   ..+|+||+|||.++.+++
T Consensus        86 ~~~i~~if~~A~~~----~p~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~---~~~v~vi~tTn~~~~ld~  158 (246)
T d1d2na_          86 CQAMKKIFDDAYKS----QLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQ---GRKLLIIGTTSRKDVLQE  158 (246)
T ss_dssp             HHHHHHHHHHHHTS----SEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCST---TCEEEEEEEESCHHHHHH
T ss_pred             hhhhhhhhhhhhhc----ccceeehhhhhhHhhhcccccchhHHHHHHHHHHhcCCCcc---ccceeeeeccCChhhccc
Confidence            35688899888754    59999999999998877655555567788888888875432   236899999999999987


Q ss_pred             HhhccCCcceEEEccCCC-HHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCcc
Q 007255          178 ALRRSGRFDAEVEVTVPT-AEERFEILKLYTKKVPLDANVDLEAIATSCNGYVG  230 (611)
Q Consensus       178 ~l~~~~Rf~~~i~~~~p~-~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~  230 (611)
                      ..++ +||+..|++|.++ .+++.++++..   .. ..+.+...++..+.|...
T Consensus       159 ~~~~-~rF~~~i~~P~~~~r~~il~~l~~~---~~-~~~~~~~~i~~~~~g~~~  207 (246)
T d1d2na_         159 MEML-NAFSTTIHVPNIATGEQLLEALELL---GN-FKDKERTTIAQQVKGKKV  207 (246)
T ss_dssp             TTCT-TTSSEEEECCCEEEHHHHHHHHHHH---TC-SCHHHHHHHHHHHTTSEE
T ss_pred             hhhc-CccceEEecCCchhHHHHHHHHHhc---cC-CChHHHHHHHHHcCCCcc
Confidence            6332 4999889886553 33444443332   12 234457778888887654

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=99.86  E-value=7.1e-21  Score=183.87  Aligned_cols=216  Identities=24%  Similarity=0.255  Sum_probs=157.4

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~  364 (611)
                      .+.+|+|++|++++++.|..++.+...        +..++.++|||||||||||++|+++|+++++++..++++....  
T Consensus         4 RP~~~ddivGq~~~~~~L~~~i~~~~~--------~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~--   73 (239)
T d1ixsb2           4 RPKTLDEYIGQERLKQKLRVYLEAAKA--------RKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--   73 (239)
T ss_dssp             CCCSGGGSCSCHHHHHHHHHHHHHHTT--------SSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCS--
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCcccc--
Confidence            355899999999999999999875322        2345678999999999999999999999999999999877643  


Q ss_pred             ccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCC----------------CCCC
Q 007255          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL----------------EQAK  428 (611)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~----------------~~~~  428 (611)
                      .+.....+.    . .....+|+||||+|.+..              .....++..++..                ....
T Consensus        74 ~~~~~~~~~----~-~~~~~~i~~iDe~~~~~~--------------~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~  134 (239)
T d1ixsb2          74 PGDLAAILA----N-SLEEGDILFIDEIHRLSR--------------QAEEHLYPAMEDFVMDIVIGQGPAARTIRLELP  134 (239)
T ss_dssp             HHHHHHHHH----T-TCCTTCEEEEETGGGCCH--------------HHHHHHHHHHHHSEEEEECSCTTCCCEEEEECC
T ss_pred             chhhHHHHH----h-hccCCCeeeeecccccch--------------hHHHhhhhhhhhhhhhhhhccchhhhhcccCCC
Confidence            222111111    1 113456999999998732              2233444444311                2345


Q ss_pred             CeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCc-ccHHHHHHhCCCCCHHHHHHHHHHH
Q 007255          429 GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDD-VDLRSIAEETELFTGAELEGLCREA  507 (611)
Q Consensus       429 ~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~-~~~~~la~~~~g~s~~~i~~~~~~a  507 (611)
                      ++++|++||++...+++.++  |+...+.+..|+.+++.++++..+....+..+ ..+..+++.+.| +.+.+.++++.+
T Consensus       135 ~~~~i~~~~~~~~~~~~~l~--~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~~~~l~~ia~~s~g-d~R~a~~~l~~~  211 (239)
T d1ixsb2         135 RFTLIGATTRPGLITAPLLS--RFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRG-TMRVAKRLFRRV  211 (239)
T ss_dssp             CCEEEEEESCCSSCSCGGGG--GCSEEEECCCCCHHHHHHHHHHHHGGGCCCBCHHHHHHHHHHTTS-SHHHHHHHHHHH
T ss_pred             CEEEEeeccCcccccchhhc--ccceeeEeeccChhhhhHHHHHHHHHhCCccchHHHHHHHHHcCC-CHHHHHHHHHHH
Confidence            68899999999998888888  88889999999999999999988776665533 457899999998 677777777766


Q ss_pred             HHHHHHhhcccccccHHHHHHHHhhcC
Q 007255          508 GIVALREDISATAVRNRHFQTVKDSLK  534 (611)
Q Consensus       508 ~~~a~~~~~~~~~i~~~~~~~~l~~~~  534 (611)
                      ...+.  ......|+.++..+++..+.
T Consensus       212 ~~~a~--~~~~~~It~~~~~~~l~~l~  236 (239)
T d1ixsb2         212 RDFAQ--VAGEEVITRERALEALAALG  236 (239)
T ss_dssp             HHHHT--TSCCSCBCHHHHHHHHHHHT
T ss_pred             HHHHH--HhCCCCcCHHHHHHHHhhhC
Confidence            54442  22356688888888886543

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=99.84  E-value=1.4e-19  Score=174.46  Aligned_cols=196  Identities=22%  Similarity=0.276  Sum_probs=143.0

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~   95 (611)
                      +.|++++|++++++.|..++..+...        -.++.++||+||||||||++|+++|++++.++..++++.....   
T Consensus         6 ~~~~divGqe~~~~~l~~~i~~~~~~--------~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~~---   74 (238)
T d1in4a2           6 KSLDEFIGQENVKKKLSLALEAAKMR--------GEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQ---   74 (238)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHHHHHH--------TCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSH---
T ss_pred             CcHHHcCChHHHHHHHHHHHHHHHhc--------CCCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccccH---
Confidence            56799999999999999998654221        2345689999999999999999999999999999887765421   


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC------------CCCCcE
Q 007255           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK------------TSVPHV  163 (611)
Q Consensus        96 ~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~------------~~~~~v  163 (611)
                         ..+...+..      ..+.++++|||+|.+.+          .....++..++......            ....++
T Consensus        75 ---~~~~~~~~~------~~~~~~~~ide~~~~~~----------~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  135 (238)
T d1in4a2          75 ---GDMAAILTS------LERGDVLFIDEIHRLNK----------AVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPF  135 (238)
T ss_dssp             ---HHHHHHHHH------CCTTCEEEEETGGGCCH----------HHHHHHHHHHHTSCCCC---------------CCC
T ss_pred             ---HHHHHHHHh------hccCCchHHHHHHHhhh----------HHHhhcccceeeeeeeeeecCcccccccccCCCCe
Confidence               223333322      23568999999998854          33455555555432111            112367


Q ss_pred             EEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcc-cHHHHHHhccCCccccHHHHHHHHHH
Q 007255          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREATM  242 (611)
Q Consensus       164 ~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~-~~~~la~~~~g~~~~dl~~l~~~a~~  242 (611)
                      ++|++||.+..+++++++  ||...+.++.|+.+++..+++..+.......+. .+..++..+.| ..+.+.++++.+..
T Consensus       136 ~~I~at~~~~~~~~~~~~--r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~s~g-d~R~ai~~l~~~~~  212 (238)
T d1in4a2         136 TLVGATTRSGLLSSPLRS--RFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRG-TPRIAIRLTKRVRD  212 (238)
T ss_dssp             EEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTT-CHHHHHHHHHHHHH
T ss_pred             EEEEecCCCcccccccee--eeeEEEEecCCCHHHHHHHHHHhhhhccchhhHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            899999999999999998  999889999999999999999988776655443 37777777765 45555566665543


Q ss_pred             HH
Q 007255          243 SA  244 (611)
Q Consensus       243 ~a  244 (611)
                      .+
T Consensus       213 ~~  214 (238)
T d1in4a2         213 ML  214 (238)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.83  E-value=7e-21  Score=190.34  Aligned_cols=185  Identities=23%  Similarity=0.318  Sum_probs=140.6

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHHhc-CCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc--ccccc
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQKL-GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK--AHVGE   96 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~-g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~--~~~~~   96 (611)
                      .|+||+++|+.|..++..++.+....... ...++.++||+||||||||++|+++|+.++.+++.++++.+..  .+.+.
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~   94 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   94 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGS
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeee
Confidence            37999999999999887655444322221 1236789999999999999999999999999999999999874  46788


Q ss_pred             hHHHHHHHHHHHHhhhh-cCCCeEEEEccccccCCCCCCCch--hhHHHHHHHHHHHhcCCCCCC----CCCcEEEEEe-
Q 007255           97 SEKALREAFSQASSHAL-SGKPSVVFIDEIDALCPRRDHRRE--QDVRIASQLFTLMDSNKPSKT----SVPHVVVVAS-  168 (611)
Q Consensus        97 ~~~~l~~~f~~~~~~~~-~~~~~il~IDeid~l~~~~~~~~~--~~~~~~~~ll~~l~~~~~~~~----~~~~v~ii~t-  168 (611)
                      .+..++.+|..+..... ..+||||||||+|.+++.......  ....+++.|+..++.......    ...++++|++ 
T Consensus        95 ~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~ilfi~~g  174 (309)
T d1ofha_          95 VDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASG  174 (309)
T ss_dssp             TTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEE
T ss_pred             ccccccccchhhhcccccccCCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecCCeEEEccceeEEecc
Confidence            88889999988754321 124789999999999987654322  233477889999986322111    1124667766 


Q ss_pred             ---ecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHh
Q 007255          169 ---TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLY  206 (611)
Q Consensus       169 ---tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~  206 (611)
                         ++.+..++|+++.  ||+..+.+++|+..++.+|+..+
T Consensus       175 a~~~~~~~~~~p~l~~--R~~~~i~~~~~~~~~~~~Il~~~  213 (309)
T d1ofha_         175 AFQVARPSDLIPELQG--RLPIRVELTALSAADFERILTEP  213 (309)
T ss_dssp             CCSSSCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHSS
T ss_pred             chhhcCcccchhhhhh--hhheeeeccCCCHHHHHHHHHHH
Confidence               5677899999987  99999999999999999998643

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.83  E-value=4e-20  Score=178.20  Aligned_cols=226  Identities=19%  Similarity=0.233  Sum_probs=167.8

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEeecc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSG  357 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~~~  357 (611)
                      .++.++|.+.-.+++.+.+..             ...+++||+||||+|||++++.+|..+          +..++.++.
T Consensus        16 ~ld~~igRd~Ei~~l~~iL~r-------------~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~   82 (268)
T d1r6bx2          16 GIDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDI   82 (268)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCC
T ss_pred             CCCcccChHHHHHHHHHHHhc-------------CccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeee
Confidence            456688998888888887764             445689999999999999999999875          678999999


Q ss_pred             hhhcc--ccccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEe
Q 007255          358 AELYS--MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAA  435 (611)
Q Consensus       358 ~~~~~--~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~  435 (611)
                      +.+.+  +|.|+.+..++.+++.+....+.|+||||+|.+++..+..++     ...+    -+.|...-..+.+.+||+
T Consensus        83 ~~liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~-----~~d~----a~~Lkp~L~rg~i~vIga  153 (268)
T d1r6bx2          83 GSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGG-----QVDA----ANLIKPLLSSGKIRVIGS  153 (268)
T ss_dssp             C---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSC-----HHHH----HHHHSSCSSSCCCEEEEE
T ss_pred             chHhccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCc-----cccH----HHHhhHHHhCCCCeEEEe
Confidence            99986  799999999999999998888889999999999876432221     1122    233333346888999998


Q ss_pred             cCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 007255          436 TNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       436 tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~  510 (611)
                      |+..+     +-|++|.|  ||+ .|.++.|+.++...|++.....+...+.+.          |+...+..++..+..+
T Consensus       154 tT~eey~~~~e~d~al~r--rF~-~I~V~Eps~e~t~~IL~~~~~~~e~~h~v~----------~~~~al~~~v~ls~ry  220 (268)
T d1r6bx2         154 TTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLKPKYEAHHDVR----------YTAKAVRAAVELAVKY  220 (268)
T ss_dssp             ECHHHHHCCCCCTTSSGG--GEE-EEECCCCCHHHHHHHHHHHHHHHHHHHTCC----------CCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhhcHHHHh--hhc-ccccCCCCHHHHHHHHHHhhHHHhccCCEE----------eChHHHHHHHHHHHhh
Confidence            88543     56899999  998 999999999999999997665544433443          6777777777777777


Q ss_pred             HHHhhcccccccHHHHHHHHhhcC------CCCCHHHHHHHHHH
Q 007255          511 ALREDISATAVRNRHFQTVKDSLK------PALTKEEIDSYSSF  548 (611)
Q Consensus       511 a~~~~~~~~~i~~~~~~~~l~~~~------~~~~~~~~~~~~~~  548 (611)
                      .-.+.++++.|+.-|...+..++.      ..+..++++....-
T Consensus       221 i~~~~~PdKAIdllDea~a~~~~~~~~~~~~~i~~~di~~~i~~  264 (268)
T d1r6bx2         221 INDRHLPDKAIDVIDEAGARARLMPVSKRKKTVNVADIESVVAR  264 (268)
T ss_dssp             CTTSCTTHHHHHHHHHHHHHHHHSSSCCCCCSCCHHHHHHHHHH
T ss_pred             ccCCCCCcHHHHHHHHHHHHHHhhccccCcccCCHHHHHHHHHH
Confidence            777777777777766666554442      22455555554433

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=99.83  E-value=5.4e-23  Score=202.90  Aligned_cols=161  Identities=17%  Similarity=0.182  Sum_probs=127.0

Q ss_pred             CchHHHhcCCCCCceEE-EEcCCCCcHHHHHHHHHHHhC--CcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCC
Q 007255           41 YSSQAQKLGLKWPRGLL-LYGPPGTGKTSLVRAVVRECG--AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKP  117 (611)
Q Consensus        41 ~~~~~~~~g~~~~~~iL-l~Gp~GtGKT~la~~la~~l~--~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~  117 (611)
                      .+..+..+|.+.+++++ |+||||||||.+|+++|.+++  .+++.++.+++.+.|.|+++..++.+|+.+..      |
T Consensus       110 ~~~~~~~~~~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~------~  183 (321)
T d1w44a_         110 SPVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ------H  183 (321)
T ss_dssp             CCEEEEETTEEEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH------C
T ss_pred             chHHHHHhhcccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhh------c
Confidence            45556666766666655 589999999999999999986  67899999999999999999999999999863      7


Q ss_pred             eEEEEccccccCCCCCCC--chhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCc---ccccHHhhccCCcceEEEcc
Q 007255          118 SVVFIDEIDALCPRRDHR--REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV---DAIDPALRRSGRFDAEVEVT  192 (611)
Q Consensus       118 ~il~IDeid~l~~~~~~~--~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~---~~l~~~l~~~~Rf~~~i~~~  192 (611)
                      |||||||||.+.+.+.++  .....+.+++++..||.....    .+|++|++||+.   +.+++++.+++||+..++++
T Consensus       184 ~ilf~DEid~~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~~----~~v~viaatN~~~~~~~i~~~~~r~~Rf~~~v~v~  259 (321)
T d1w44a_         184 RVIVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAMAAS----RGCVVIASLNPTSNDDKIVELVKEASRSNSTSLVI  259 (321)
T ss_dssp             SEEEEECCTTTC-----------CCHHHHHHHHHHHHHHHH----HTCEEEEECCCCCCCHHHHHHHHHHHHHSCSEEEE
T ss_pred             cEEEeehhhhhccccccCCCCCcchhhhhhhhhhccccccC----CCeEEEEeCCCcccccchhhhhhccCcccceeecC
Confidence            899999999999877432  223347889999999865432    258999999973   45777888999999999999


Q ss_pred             CCCHHHHHHHHHHhhcCCC
Q 007255          193 VPTAEERFEILKLYTKKVP  211 (611)
Q Consensus       193 ~p~~~~r~~Il~~~~~~~~  211 (611)
                      .|+.+.|.+|++.+...+.
T Consensus       260 ~pd~~~r~~il~~~~~~~~  278 (321)
T d1w44a_         260 STDVDGEWQVLTRTGEGLQ  278 (321)
T ss_dssp             ECSSTTEEEEEEECBTTCC
T ss_pred             CCChHHHHHHHHHhccCcc
Confidence            9999999999876655443

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=99.80  E-value=1.1e-19  Score=184.99  Aligned_cols=223  Identities=21%  Similarity=0.271  Sum_probs=161.6

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEeecc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSG  357 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~~~  357 (611)
                      .++-++|.+.-.+++.+.+..             +..++.+|+||||+|||++++.+|..+          +..++.++.
T Consensus        20 ~ld~~~gr~~ei~~~~~~L~r-------------~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~   86 (387)
T d1qvra2          20 KLDPVIGRDEEIRRVIQILLR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQM   86 (387)
T ss_dssp             CSCCCCSCHHHHHHHHHHHHC-------------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC
T ss_pred             CCCCCcCcHHHHHHHHHHHhc-------------CCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeH
Confidence            456688998888888888764             445689999999999999999999876          567999999


Q ss_pred             hhhcc--ccccchHHHHHHHHHHHHhcC-CcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEE
Q 007255          358 AELYS--MYVGESEALLRNTFQRARLAA-PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLA  434 (611)
Q Consensus       358 ~~~~~--~~~g~~~~~~~~~~~~a~~~~-p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~  434 (611)
                      +.+..  +|.|+.+..+..++..+.... +.||||||+|.+++..+..  ++.+..+-++.    .|    ..+.+-|||
T Consensus        87 ~~l~ag~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~--g~~d~a~~Lkp----~L----~rg~~~~I~  156 (387)
T d1qvra2          87 GSLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAE--GAVDAGNMLKP----AL----ARGELRLIG  156 (387)
T ss_dssp             -----------CHHHHHHHHHHHHHTTCSSEEEEECCC---------------------HH----HH----HTTCCCEEE
T ss_pred             hhhhcccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCC--CcccHHHHHHH----HH----hCCCcceee
Confidence            99986  689999999999999988765 6789999999998765322  22333333333    33    567888999


Q ss_pred             ecCCCc----ccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 007255          435 ATNRPH----AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIV  510 (611)
Q Consensus       435 ~tn~~~----~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~  510 (611)
                      +|+..+    +-|+||.|  ||+ .|.++.|+.++...|++.....+..++.+.          |+...|..+++.+..+
T Consensus       157 ~tT~~ey~~~e~d~al~r--rF~-~v~v~ep~~~~~~~il~~~~~~~e~~h~v~----------~~~~ai~~~v~ls~ry  223 (387)
T d1qvra2         157 ATTLDEYREIEKDPALER--RFQ-PVYVDEPTVEETISILRGLKEKYEVHHGVR----------ISDSAIIAAATLSHRY  223 (387)
T ss_dssp             EECHHHHHHHTTCTTTCS--CCC-CEEECCCCHHHHHHHHHHHHHHHHHHTTCE----------ECHHHHHHHHHHHHHH
T ss_pred             ecCHHHHHHhcccHHHHH--hcc-cccCCCCcHHHHHHHHHHHHHHHHhccCCc----------ccHHHHHHHHHhcccc
Confidence            998433    45899999  999 899999999999999998877776666666          7888999999988888


Q ss_pred             HHHhhcccccccHHHHHHHHhhcCCCCCHHHHHHHH
Q 007255          511 ALREDISATAVRNRHFQTVKDSLKPALTKEEIDSYS  546 (611)
Q Consensus       511 a~~~~~~~~~i~~~~~~~~l~~~~~~~~~~~~~~~~  546 (611)
                      ...+.++++.|+.-|...+..++.....+++++..+
T Consensus       224 i~~r~~PdKAidlld~a~a~~~i~~~s~P~el~~le  259 (387)
T d1qvra2         224 ITERRLPDKAIDLIDEAAARLRMALESAPEEIDALE  259 (387)
T ss_dssp             CCSSCTHHHHHHHHHHHHHHHHHTTTTHHHHHHHHH
T ss_pred             cccccChhhHHHHHHHHHHHHHhhccCCcHHHHHHH
Confidence            888899999999888888888887776777665443

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=99.80  E-value=2e-18  Score=166.30  Aligned_cols=195  Identities=23%  Similarity=0.279  Sum_probs=136.8

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccc
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~   94 (611)
                      .++|++++|++++++.|..++.....        +..++.++||+||||||||++|+++|++++.++..++++.....  
T Consensus         5 P~~~ddivGq~~~~~~L~~~i~~~~~--------~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~--   74 (239)
T d1ixsb2           5 PKTLDEYIGQERLKQKLRVYLEAAKA--------RKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP--   74 (239)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHHTT--------SSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSH--
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccc--
Confidence            45789999999999999999865322        22356899999999999999999999999999999987765321  


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCC------------CCCCCCc
Q 007255           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP------------SKTSVPH  162 (611)
Q Consensus        95 ~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~------------~~~~~~~  162 (611)
                          .......   ..  .....+|++|||+|.+..          ..+..++..++....            .....++
T Consensus        75 ----~~~~~~~---~~--~~~~~~i~~iDe~~~~~~----------~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~  135 (239)
T d1ixsb2          75 ----GDLAAIL---AN--SLEEGDILFIDEIHRLSR----------QAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPR  135 (239)
T ss_dssp             ----HHHHHHH---HT--TCCTTCEEEEETGGGCCH----------HHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCC
T ss_pred             ----hhhHHHH---Hh--hccCCCeeeeecccccch----------hHHHhhhhhhhhhhhhhhhccchhhhhcccCCCC
Confidence                1111111   11  123467999999998754          334555555543210            0011345


Q ss_pred             EEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCccccHHHHHHHHH
Q 007255          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREAT  241 (611)
Q Consensus       163 v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~~dl~~l~~~a~  241 (611)
                      +++|++|+.+....++.++  |+...+.+..|+.+++..++...+.......+ ..+..++..+.|- .+...++++.+.
T Consensus       136 ~~~i~~~~~~~~~~~~~l~--~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~~~~l~~ia~~s~gd-~R~a~~~l~~~~  212 (239)
T d1ixsb2         136 FTLIGATTRPGLITAPLLS--RFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGT-MRVAKRLFRRVR  212 (239)
T ss_dssp             CEEEEEESCCSSCSCGGGG--GCSEEEECCCCCHHHHHHHHHHHHGGGCCCBCHHHHHHHHHHTTSS-HHHHHHHHHHHH
T ss_pred             EEEEeeccCcccccchhhc--ccceeeEeeccChhhhhHHHHHHHHHhCCccchHHHHHHHHHcCCC-HHHHHHHHHHHH
Confidence            7788888888877777776  66678999999999999999988876665433 3478888888874 344445555443

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.79  E-value=3.2e-19  Score=171.84  Aligned_cols=203  Identities=16%  Similarity=0.207  Sum_probs=146.6

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc------------
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS------------  351 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~------------  351 (611)
                      +.+.+|+|++|++++++.|..++..            ...++++|||||||+|||++|++++++++..            
T Consensus         6 yrP~~~~dlig~~~~~~~L~~~i~~------------~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~   73 (239)
T d1njfa_           6 WRPQTFADVVGQEHVLTALANGLSL------------GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCD   73 (239)
T ss_dssp             TCCSSGGGSCSCHHHHHHHHHHHHT------------TCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSH
T ss_pred             hCCCCHHHccChHHHHHHHHHHHHc------------CCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccch
Confidence            3456899999999999999998863            2456779999999999999999999988432            


Q ss_pred             ------------EEeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHH
Q 007255          352 ------------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLS  415 (611)
Q Consensus       352 ------------~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~  415 (611)
                                  ++.++.++..      .-..++.+.+.+..    ....|++|||+|.+              .....+
T Consensus        74 ~~~~i~~~~~~~~~~~~~~~~~------~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l--------------~~~~q~  133 (239)
T d1njfa_          74 NCREIEQGRFVDLIEIDAASRT------KVEDTRDLLDNVQYAPARGRFKVYLIDEVHML--------------SRHSFN  133 (239)
T ss_dssp             HHHHHHHTCCTTEEEEETTCSS------SHHHHHHHHHSCCCSCSSSSSEEEEEETGGGS--------------CHHHHH
T ss_pred             HHHHHHcCCCCeEEEecchhcC------CHHHHHHHHHHHHhccccCCCEEEEEECcccC--------------CHHHHH
Confidence                        2333322211      12335555555432    12349999999987              245678


Q ss_pred             HHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCC
Q 007255          416 TLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETEL  494 (611)
Q Consensus       416 ~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g  494 (611)
                      .|++.|+  .+++++.+|++||.++.+.+++.+  |+. .+.|+.|+.++...++.......... ++..++.++..+.|
T Consensus       134 ~Llk~lE--~~~~~~~~il~tn~~~~i~~~i~S--Rc~-~i~~~~~~~~~i~~~l~~i~~~e~~~~~~~~l~~i~~~s~G  208 (239)
T d1njfa_         134 ALLKTLE--EPPEHVKFLLATTDPQKLPVTILS--RCL-QFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEG  208 (239)
T ss_dssp             HHHHHHH--SCCTTEEEEEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHTTT
T ss_pred             HHHHHHh--cCCCCeEEEEEcCCccccChhHhh--hhc-ccccccCcHHHhhhHHHHHHhhhccCCCHHHHHHHHHHcCC
Confidence            8999998  567888999999999999999998  886 89999999999988888665443332 44568899999887


Q ss_pred             CCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          495 FTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       495 ~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                       +.+.+.++++.+....      ...|+.+++..++
T Consensus       209 -d~R~ain~l~~~~~~~------~~~I~~~~v~~~l  237 (239)
T d1njfa_         209 -SLRDALSLTDQAIASG------DGQVSTQAVSAML  237 (239)
T ss_dssp             -CHHHHHHHHHHHHHHT------TTSBCHHHHHHHH
T ss_pred             -CHHHHHHHHHHHHHhC------CCCcCHHHHHHHh
Confidence             6666665555433221      2347777776655

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.78  E-value=5e-19  Score=169.75  Aligned_cols=189  Identities=21%  Similarity=0.227  Sum_probs=137.6

Q ss_pred             ccCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC-----CcEEeec
Q 007255          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE-----ASFFSLS  356 (611)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~-----~~~~~~~  356 (611)
                      ..+.+.+|+|++|++.+++.|+.++..             ....++||+||||+|||++|+++|++++     .++++++
T Consensus        16 ~ky~P~~~~diig~~~~~~~l~~~i~~-------------~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n   82 (231)
T d1iqpa2          16 EKYRPQRLDDIVGQEHIVKRLKHYVKT-------------GSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELN   82 (231)
T ss_dssp             HHTCCCSTTTCCSCHHHHHHHHHHHHH-------------TCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEE
T ss_pred             HHhCCCCHHHccCcHHHHHHHHHHHHc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEe
Confidence            344566899999999999999999874             1223699999999999999999999874     3677777


Q ss_pred             chhhccccccchHHHHHHHHHH--HHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEE
Q 007255          357 GAELYSMYVGESEALLRNTFQR--ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLA  434 (611)
Q Consensus       357 ~~~~~~~~~g~~~~~~~~~~~~--a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~  434 (611)
                      +++..+.  .............  .....+.|+++||+|.+.              ....+.|++.++  .....+.+|+
T Consensus        83 ~s~~~~~--~~~~~~~~~~~~~~~~~~~~~~iilide~d~~~--------------~~~~~~ll~~l~--~~~~~~~~i~  144 (231)
T d1iqpa2          83 ASDERGI--NVIREKVKEFARTKPIGGASFKIIFLDEADALT--------------QDAQQALRRTME--MFSSNVRFIL  144 (231)
T ss_dssp             TTCHHHH--HTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSC--------------HHHHHHHHHHHH--HTTTTEEEEE
T ss_pred             cCcccch--hHHHHHHHHHHhhhhccCCCceEEeehhhhhcc--------------hhHHHHHhhhcc--cCCcceEEEe
Confidence            7654331  1111111111111  122346799999999774              334567777776  4566789999


Q ss_pred             ecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHH
Q 007255          435 ATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCR  505 (611)
Q Consensus       435 ~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~  505 (611)
                      +||.+..+++++.+  |+. .+.++.|+..+...+++..+.+..+. ++..++.+++.+.| +.+++.+.++
T Consensus       145 ~~n~~~~i~~~l~s--R~~-~i~~~~~~~~~~~~~l~~~~~~e~i~i~~~~l~~I~~~~~g-diR~ai~~Lq  212 (231)
T d1iqpa2         145 SCNYSSKIIEPIQS--RCA-IFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEG-DMRRAINILQ  212 (231)
T ss_dssp             EESCGGGSCHHHHH--TEE-EEECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTT-CHHHHHHHHH
T ss_pred             ccCChhhchHhHhC--ccc-cccccccchhhHHHHHHHHHHHhCCCCCHHHHHHHHHHcCC-CHHHHHHHHH
Confidence            99999999999998  886 79999999999999999888776654 44567889988877 5555544444

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.76  E-value=8e-19  Score=167.79  Aligned_cols=206  Identities=16%  Similarity=0.188  Sum_probs=140.6

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----EEeecch
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----FFSLSGA  358 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----~~~~~~~  358 (611)
                      +.+.+++|++|++++++.|..++..           + . ..++|||||||+|||++|+++|++++..     ++..+.+
T Consensus         8 yrP~~~~divg~~~~~~~L~~~i~~-----------~-~-~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~   74 (227)
T d1sxjc2           8 YRPETLDEVYGQNEVITTVRKFVDE-----------G-K-LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNAS   74 (227)
T ss_dssp             TCCSSGGGCCSCHHHHHHHHHHHHT-----------T-C-CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTT
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHc-----------C-C-CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEeccc
Confidence            4456899999999999999999863           1 1 2359999999999999999999997533     4555554


Q ss_pred             hhccccccchHHHHHHHHHHHHh------cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEE
Q 007255          359 ELYSMYVGESEALLRNTFQRARL------AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILV  432 (611)
Q Consensus       359 ~~~~~~~g~~~~~~~~~~~~a~~------~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  432 (611)
                      +..+.      ............      ....+++|||+|.+.              ....+.|++.|+  .....+++
T Consensus        75 ~~~~~------~~~~~~~~~~~~~~~~~~~~~kiiiiDe~d~~~--------------~~~~~~Ll~~le--~~~~~~~~  132 (227)
T d1sxjc2          75 DDRGI------DVVRNQIKDFASTRQIFSKGFKLIILDEADAMT--------------NAAQNALRRVIE--RYTKNTRF  132 (227)
T ss_dssp             SCCSH------HHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSC--------------HHHHHHHHHHHH--HTTTTEEE
T ss_pred             ccCCe------eeeecchhhccccccccCCCeEEEEEeccccch--------------hhHHHHHHHHhh--hcccceee
Confidence            43321      111111111111      223499999999873              345678888887  35667889


Q ss_pred             EEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 007255          433 LAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGIVA  511 (611)
Q Consensus       433 I~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a  511 (611)
                      +++||.+..+++++++  |+. .+.|+.|+.++...++...+...++. ++..++.+++.+.| +.+.+-+.++.+... 
T Consensus       133 ~~~~~~~~~i~~~i~s--r~~-~i~~~~~~~~~i~~~l~~I~~~e~i~i~~~~l~~i~~~s~G-d~R~ain~Lq~~~~~-  207 (227)
T d1sxjc2         133 CVLANYAHKLTPALLS--QCT-RFRFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNG-DMRRVLNVLQSCKAT-  207 (227)
T ss_dssp             EEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTT-CHHHHHHHTTTTTTT-
T ss_pred             ccccCcHHHhHHHHHH--HHh-hhccccccccccccccccccccccccCCHHHHHHHHHHcCC-cHHHHHHHHHHHHHh-
Confidence            9999999999999998  886 88999999999999999777665554 44557889998877 333333333321111 


Q ss_pred             HHhhcccccccHHHHHHHH
Q 007255          512 LREDISATAVRNRHFQTVK  530 (611)
Q Consensus       512 ~~~~~~~~~i~~~~~~~~l  530 (611)
                       ........|+.+++.+++
T Consensus       208 -~~~~~~~~It~~~v~e~~  225 (227)
T d1sxjc2         208 -LDNPDEDEISDDVIYECC  225 (227)
T ss_dssp             -TCSSSCCCBCHHHHHHHT
T ss_pred             -cCCCCCCeeCHHHHHHHh
Confidence             111123456666666554

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.74  E-value=2.2e-17  Score=158.06  Aligned_cols=174  Identities=22%  Similarity=0.266  Sum_probs=130.2

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEcccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~-----~~~~v~~~~~~   90 (611)
                      +.+++++|++++++.|..++...             ...++||+||||||||++|+++|++++.     .++++++++..
T Consensus        21 ~~~~diig~~~~~~~l~~~i~~~-------------~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~   87 (231)
T d1iqpa2          21 QRLDDIVGQEHIVKRLKHYVKTG-------------SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDER   87 (231)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHT-------------CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcC-------------CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCccc
Confidence            67999999999999999998541             3358999999999999999999998753     67777776532


Q ss_pred             cccccchHHHHHHHHHHHHhh--hhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEe
Q 007255           91 KAHVGESEKALREAFSQASSH--ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~~~--~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t  168 (611)
                      ..      ..++..+......  ....++.|+++||+|.+..          ..+..|+..++...      .++.+|++
T Consensus        88 ~~------~~~~~~~~~~~~~~~~~~~~~~iilide~d~~~~----------~~~~~ll~~l~~~~------~~~~~i~~  145 (231)
T d1iqpa2          88 GI------NVIREKVKEFARTKPIGGASFKIIFLDEADALTQ----------DAQQALRRTMEMFS------SNVRFILS  145 (231)
T ss_dssp             HH------HTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCH----------HHHHHHHHHHHHTT------TTEEEEEE
T ss_pred             ch------hHHHHHHHHHHhhhhccCCCceEEeehhhhhcch----------hHHHHHhhhcccCC------cceEEEec
Confidence            21      1112222222111  1234578999999998754          44567777777633      25789999


Q ss_pred             ecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccC
Q 007255          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNG  227 (611)
Q Consensus       169 tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g  227 (611)
                      ||....+++++++  |+. .+.+++|+..+...+++..+....+. .+..++.++..+.|
T Consensus       146 ~n~~~~i~~~l~s--R~~-~i~~~~~~~~~~~~~l~~~~~~e~i~i~~~~l~~I~~~~~g  202 (231)
T d1iqpa2         146 CNYSSKIIEPIQS--RCA-IFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEG  202 (231)
T ss_dssp             ESCGGGSCHHHHH--TEE-EEECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTT
T ss_pred             cCChhhchHhHhC--ccc-cccccccchhhHHHHHHHHHHHhCCCCCHHHHHHHHHHcCC
Confidence            9999999999998  885 79999999999999999998877654 23357888887765

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.73  E-value=3.9e-18  Score=154.91  Aligned_cols=157  Identities=23%  Similarity=0.339  Sum_probs=121.4

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----------CCcEEeecc
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSG  357 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----------~~~~~~~~~  357 (611)
                      .++.++|.++..+++.+.+..             +..++++|+||||+|||++++.+|..+          +..++.++.
T Consensus        20 ~ld~~igRd~Ei~~l~~iL~r-------------~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~   86 (195)
T d1jbka_          20 KLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM   86 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECH
T ss_pred             CCCCCcCcHHHHHHHHHHHhc-------------cCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeH
Confidence            356678888888888887764             345689999999999999999999866          678999999


Q ss_pred             hhhcc--ccccchHHHHHHHHHHHHhcC-CcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEE
Q 007255          358 AELYS--MYVGESEALLRNTFQRARLAA-PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLA  434 (611)
Q Consensus       358 ~~~~~--~~~g~~~~~~~~~~~~a~~~~-p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~  434 (611)
                      +.+.+  +|.|+.+..++.+++.+.... +.||||||+|.+++.....  ++.+..+-++..    |    ..+.+.||+
T Consensus        87 ~~LiAg~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~--g~~d~~~~Lkp~----L----~rg~l~~Ig  156 (195)
T d1jbka_          87 GALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKAD--GAMDAGNMLKPA----L----ARGELHCVG  156 (195)
T ss_dssp             HHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT--------CCCCHHHHHHH----H----HTTSCCEEE
T ss_pred             HHHhccCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCC--CcccHHHHHHHH----H----hCCCceEEe
Confidence            99985  688999999999999886654 5699999999998764322  222333333333    3    467888999


Q ss_pred             ecCCCc-----ccchhccCCCCccceeecCCCCHHHHHHHH
Q 007255          435 ATNRPH-----AIDAALMRPGRFDLVLYVPPPDLEARHEIL  470 (611)
Q Consensus       435 ~tn~~~-----~ld~al~r~gRf~~~i~~~~p~~~~r~~il  470 (611)
                      +|+..+     +-|++|.|  ||+ .|.+..|+.++...|+
T Consensus       157 atT~eey~~~~e~d~aL~r--rF~-~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         157 ATTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             EECHHHHHHHTTTCHHHHT--TEE-EEECCCCCHHHHHTTC
T ss_pred             cCCHHHHHHHHHcCHHHHh--cCC-EeecCCCCHHHHHHHh
Confidence            888544     46999999  998 8999999999888775

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.72  E-value=1.5e-16  Score=152.82  Aligned_cols=177  Identities=18%  Similarity=0.238  Sum_probs=130.6

Q ss_pred             ccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc-------------
Q 007255           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------------   80 (611)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~-------------   80 (611)
                      ..+.|++++|++++++.|..++..            ...|.++||+||||||||++|++++++++..             
T Consensus         7 rP~~~~dlig~~~~~~~L~~~i~~------------~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~   74 (239)
T d1njfa_           7 RPQTFADVVGQEHVLTALANGLSL------------GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDN   74 (239)
T ss_dssp             CCSSGGGSCSCHHHHHHHHHHHHT------------TCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHH
T ss_pred             CCCCHHHccChHHHHHHHHHHHHc------------CCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchH
Confidence            447889999999999999998754            1345679999999999999999999988532             


Q ss_pred             -----------EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHH
Q 007255           81 -----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (611)
Q Consensus        81 -----------~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~  149 (611)
                                 ++.++.++.      .....++.+.+........++..|++|||+|.|..          ..++.|+..
T Consensus        75 ~~~i~~~~~~~~~~~~~~~~------~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~----------~~q~~Llk~  138 (239)
T d1njfa_          75 CREIEQGRFVDLIEIDAASR------TKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSR----------HSFNALLKT  138 (239)
T ss_dssp             HHHHHHTCCTTEEEEETTCS------SSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCH----------HHHHHHHHH
T ss_pred             HHHHHcCCCCeEEEecchhc------CCHHHHHHHHHHHHhccccCCCEEEEEECcccCCH----------HHHHHHHHH
Confidence                       233332211      11233555555544333344567999999999843          567889999


Q ss_pred             HhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHhccC
Q 007255          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNG  227 (611)
Q Consensus       150 l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~-~~~~~~~la~~~~g  227 (611)
                      ++..      ..++.+|++||.++.+.+++++  || ..+.|++|+.++...++...+...... .+..++.++..+.|
T Consensus       139 lE~~------~~~~~~il~tn~~~~i~~~i~S--Rc-~~i~~~~~~~~~i~~~l~~i~~~e~~~~~~~~l~~i~~~s~G  208 (239)
T d1njfa_         139 LEEP------PEHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEG  208 (239)
T ss_dssp             HHSC------CTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHTTT
T ss_pred             HhcC------CCCeEEEEEcCCccccChhHhh--hh-cccccccCcHHHhhhHHHHHHhhhccCCCHHHHHHHHHHcCC
Confidence            9863      2357889999999999999999  88 489999999999999998877654433 22347788887766

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.72  E-value=2.3e-16  Score=150.42  Aligned_cols=174  Identities=19%  Similarity=0.246  Sum_probs=126.6

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEcccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~-----~~~~v~~~~~~   90 (611)
                      +.+++++|++++++.|..++...             ...++||+||||||||++++++|++++.     .+...+.++..
T Consensus        11 ~~~~divg~~~~~~~L~~~i~~~-------------~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~   77 (227)
T d1sxjc2          11 ETLDEVYGQNEVITTVRKFVDEG-------------KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDR   77 (227)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTT-------------CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCC
T ss_pred             CCHHHccCcHHHHHHHHHHHHcC-------------CCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccC
Confidence            78999999999999999987541             2246999999999999999999999753     24555555432


Q ss_pred             cccccchHHHHHHHHHHHH--hhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEe
Q 007255           91 KAHVGESEKALREAFSQAS--SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~--~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~t  168 (611)
                      ..      ...........  .........+++|||+|.+..          ..+..|+..++...      .++.++.+
T Consensus        78 ~~------~~~~~~~~~~~~~~~~~~~~~kiiiiDe~d~~~~----------~~~~~Ll~~le~~~------~~~~~~~~  135 (227)
T d1sxjc2          78 GI------DVVRNQIKDFASTRQIFSKGFKLIILDEADAMTN----------AAQNALRRVIERYT------KNTRFCVL  135 (227)
T ss_dssp             SH------HHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCH----------HHHHHHHHHHHHTT------TTEEEEEE
T ss_pred             Ce------eeeecchhhccccccccCCCeEEEEEeccccchh----------hHHHHHHHHhhhcc------cceeeccc
Confidence            21      11111111111  111123456999999998854          45778888888643      25788889


Q ss_pred             ecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccC
Q 007255          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNG  227 (611)
Q Consensus       169 tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g  227 (611)
                      ||.+..+++.+++  |+. .+.|++|+.++...++...+...+... +..++.+++.+.|
T Consensus       136 ~~~~~~i~~~i~s--r~~-~i~~~~~~~~~i~~~l~~I~~~e~i~i~~~~l~~i~~~s~G  192 (227)
T d1sxjc2         136 ANYAHKLTPALLS--QCT-RFRFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNG  192 (227)
T ss_dssp             ESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTT
T ss_pred             cCcHHHhHHHHHH--HHh-hhccccccccccccccccccccccccCCHHHHHHHHHHcCC
Confidence            9999999999998  874 889999999999999998887665543 3347888887766

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.72  E-value=7.3e-17  Score=153.61  Aligned_cols=202  Identities=18%  Similarity=0.145  Sum_probs=142.2

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc-----EEeecc
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----FFSLSG  357 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~-----~~~~~~  357 (611)
                      .+.+.+++|++|++++++.|+.++..             ....++||+||||||||++|+++|++++..     ++.+++
T Consensus         8 KyrP~~~~d~ig~~~~~~~L~~~~~~-------------~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~   74 (224)
T d1sxjb2           8 KYRPQVLSDIVGNKETIDRLQQIAKD-------------GNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNA   74 (224)
T ss_dssp             HTCCSSGGGCCSCTHHHHHHHHHHHS-------------CCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECT
T ss_pred             HhCCCCHHHhcCCHHHHHHHHHHHHc-------------CCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccc
Confidence            45567899999999999999998863             122369999999999999999999998643     667776


Q ss_pred             hhhccccccchHHHHHHHHHHHHh-------cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCe
Q 007255          358 AELYSMYVGESEALLRNTFQRARL-------AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGI  430 (611)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~a~~-------~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  430 (611)
                      ++..+.      ..+...+.....       ....+++|||+|.+.              ....+.|+..++  ......
T Consensus        75 ~~~~~~------~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~--------------~~~~~~ll~~~e--~~~~~~  132 (224)
T d1sxjb2          75 SDDRGI------DVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMT--------------AGAQQALRRTME--LYSNST  132 (224)
T ss_dssp             TSCCSH------HHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSC--------------HHHHHTTHHHHH--HTTTTE
T ss_pred             cccCCc------eehhhHHHHHHHhhccCCCcceEEEEEecccccc--------------hhHHHHHhhhcc--ccccce
Confidence            654331      222222222211       123499999999873              345567777776  466778


Q ss_pred             EEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHHHH
Q 007255          431 LVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREAGI  509 (611)
Q Consensus       431 ~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a~~  509 (611)
                      .+|++|+..+.+.+++++  |+. .|.|+.|+.++...++...+++..+. ++..+..++..+.| +.+.+-+.++.+..
T Consensus       133 ~~i~~~~~~~~i~~~l~s--r~~-~i~~~~~~~~~i~~~l~~i~~~e~~~i~~~~l~~I~~~s~G-d~R~ai~~Lq~~~~  208 (224)
T d1sxjb2         133 RFAFACNQSNKIIEPLQS--QCA-ILRYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEG-DMRQAINNLQSTVA  208 (224)
T ss_dssp             EEEEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTT-CHHHHHHHHHHHHH
T ss_pred             eeeeccCchhhhhhHHHH--HHH-HhhhcccchhhhHHHHHHHHHhcccCCCHHHHHHHHHHcCC-cHHHHHHHHHHHHH
Confidence            888999999999999998  886 79999999999999999776554443 33457888888877 44444444433211


Q ss_pred             HHHHhhcccccccHHHHHHHH
Q 007255          510 VALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       510 ~a~~~~~~~~~i~~~~~~~~l  530 (611)
                             ....++.+++..++
T Consensus       209 -------~~~~i~~~~i~~~~  222 (224)
T d1sxjb2         209 -------GHGLVNADNVFKIV  222 (224)
T ss_dssp             -------HHSSBCHHHHHHHH
T ss_pred             -------cCCCcCHHHHHHHh
Confidence                   12346666655544

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.70  E-value=6.4e-17  Score=157.00  Aligned_cols=198  Identities=17%  Similarity=0.187  Sum_probs=127.8

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCC-hh---HHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchh
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKH-ST---AFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE  359 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~-~~---~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~  359 (611)
                      +.+.+|++++|++..+++|.+++...... ..   .....+....+++|||||||||||++|+++|++++++++.++.++
T Consensus         8 y~P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~   87 (253)
T d1sxja2           8 YAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASD   87 (253)
T ss_dssp             TCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTS
T ss_pred             cCCCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhcccccc
Confidence            45568999999999999999987631100 00   011224455678999999999999999999999999999999887


Q ss_pred             hccccccchHHHHHHH---------H-----HHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC
Q 007255          360 LYSMYVGESEALLRNT---------F-----QRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE  425 (611)
Q Consensus       360 ~~~~~~g~~~~~~~~~---------~-----~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  425 (611)
                      ..+.+...  ..+...         +     .......+.++++||+|.+....           ......++....  .
T Consensus        88 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~-----------~~~~~~~~~~~~--~  152 (253)
T d1sxja2          88 VRSKTLLN--AGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGD-----------RGGVGQLAQFCR--K  152 (253)
T ss_dssp             CCCHHHHH--HTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTS-----------TTHHHHHHHHHH--H
T ss_pred             chhhHHHH--HHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccch-----------hhhhHHHhhhhc--c
Confidence            65432110  000000         0     00011235699999999885331           122334444333  1


Q ss_pred             CCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcC--CCCCCcccHHHHHHhCCCCCHHHHHHH
Q 007255          426 QAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRN--MKVGDDVDLRSIAEETELFTGAELEGL  503 (611)
Q Consensus       426 ~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~--~~~~~~~~~~~la~~~~g~s~~~i~~~  503 (611)
                      ....++++++++....+++ +.   |+...|.|+.|+.+++..+++..+..  +.+ ++..++.++..+.|    |++.+
T Consensus       153 ~~~~ii~i~~~~~~~~~~~-l~---~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i-~~~~l~~i~~~s~G----DiR~a  223 (253)
T d1sxja2         153 TSTPLILICNERNLPKMRP-FD---RVCLDIQFRRPDANSIKSRLMTIAIREKFKL-DPNVIDRLIQTTRG----DIRQV  223 (253)
T ss_dssp             CSSCEEEEESCTTSSTTGG-GT---TTSEEEECCCCCHHHHHHHHHHHHHHHTCCC-CTTHHHHHHHHTTT----CHHHH
T ss_pred             ccccccccccccccccccc-cc---ceeeeeeccccchhHHHHHHHHHHHHhCCCC-CHHHHHHHHHhCCC----cHHHH
Confidence            2334555555555555553 44   45669999999999999999977654  433 34568999998766    67666


Q ss_pred             HH
Q 007255          504 CR  505 (611)
Q Consensus       504 ~~  505 (611)
                      +.
T Consensus       224 i~  225 (253)
T d1sxja2         224 IN  225 (253)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.70  E-value=8.7e-17  Score=153.08  Aligned_cols=175  Identities=19%  Similarity=0.238  Sum_probs=128.2

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEcccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~-----~~~~v~~~~~~   90 (611)
                      +.|++++|++++++.|.+++..             ....++||+||||||||++|+.+|++++.     .++.+++++..
T Consensus        12 ~~~~d~ig~~~~~~~L~~~~~~-------------~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~   78 (224)
T d1sxjb2          12 QVLSDIVGNKETIDRLQQIAKD-------------GNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDR   78 (224)
T ss_dssp             SSGGGCCSCTHHHHHHHHHHHS-------------CCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCC
T ss_pred             CCHHHhcCCHHHHHHHHHHHHc-------------CCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccC
Confidence            7899999999999999998753             12347999999999999999999999864     36777766543


Q ss_pred             cccccchHHHHHHHHHHHHh---hhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEE
Q 007255           91 KAHVGESEKALREAFSQASS---HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (611)
Q Consensus        91 ~~~~~~~~~~l~~~f~~~~~---~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~  167 (611)
                      .      ...+...+.....   .....+..+++|||+|.+..          ..+..|+..++...      ....++.
T Consensus        79 ~------~~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~----------~~~~~ll~~~e~~~------~~~~~i~  136 (224)
T d1sxjb2          79 G------IDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA----------GAQQALRRTMELYS------NSTRFAF  136 (224)
T ss_dssp             S------HHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCH----------HHHHTTHHHHHHTT------TTEEEEE
T ss_pred             C------ceehhhHHHHHHHhhccCCCcceEEEEEecccccch----------hHHHHHhhhccccc------cceeeee
Confidence            2      1122222222211   11223456999999998855          45677777777633      2578888


Q ss_pred             eecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccCC
Q 007255          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGY  228 (611)
Q Consensus       168 ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g~  228 (611)
                      +|+..+.+.+++++  ||. .+.|++|+.++...++...+...+... +..++.++..+.|-
T Consensus       137 ~~~~~~~i~~~l~s--r~~-~i~~~~~~~~~i~~~l~~i~~~e~~~i~~~~l~~I~~~s~Gd  195 (224)
T d1sxjb2         137 ACNQSNKIIEPLQS--QCA-ILRYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGD  195 (224)
T ss_dssp             EESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTC
T ss_pred             ccCchhhhhhHHHH--HHH-HhhhcccchhhhHHHHHHHHHhcccCCCHHHHHHHHHHcCCc
Confidence            89999999999998  884 799999999999999998876544432 22477888877664

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.70  E-value=1e-16  Score=153.89  Aligned_cols=211  Identities=16%  Similarity=0.129  Sum_probs=144.2

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh------CCcEEeecc
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA------EASFFSLSG  357 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~------~~~~~~~~~  357 (611)
                      ..+.+|++++|++++++.|+.++..             ....+++|+||||||||++++++|+++      ....+.++.
T Consensus         6 y~P~~~~diig~~~~~~~l~~~i~~-------------~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~   72 (237)
T d1sxjd2           6 YRPKNLDEVTAQDHAVTVLKKTLKS-------------ANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNA   72 (237)
T ss_dssp             TCCSSTTTCCSCCTTHHHHHHHTTC-------------TTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECS
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHc-------------CCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheec
Confidence            4567899999999999999988763             122359999999999999999999986      455666665


Q ss_pred             hhhccccccchHHHHHHHH------------HHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC
Q 007255          358 AELYSMYVGESEALLRNTF------------QRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE  425 (611)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~------------~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  425 (611)
                      +...+...  ....+....            .........|++|||+|.+.              ....+.++..++  .
T Consensus        73 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~--------------~~~~~~l~~~~~--~  134 (237)
T d1sxjd2          73 SDERGISI--VREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMT--------------ADAQSALRRTME--T  134 (237)
T ss_dssp             SSCCCHHH--HTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSC--------------HHHHHHHHHHHH--H
T ss_pred             cccccchH--HHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccC--------------HHHHHHHhhccc--c
Confidence            44332110  001111110            00011123499999999883              234556666665  3


Q ss_pred             CCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHH
Q 007255          426 QAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLC  504 (611)
Q Consensus       426 ~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~  504 (611)
                      ......+|.+++.++.+.+++.+  ||. .+.|++|+.++...+++..+.+..+. ++..++.+++.+.| +.+.+.+.+
T Consensus       135 ~~~~~~~i~~~~~~~~~~~~l~s--r~~-~i~f~~~~~~~~~~~L~~i~~~e~i~i~~~~l~~ia~~s~g-d~R~ai~~L  210 (237)
T d1sxjd2         135 YSGVTRFCLICNYVTRIIDPLAS--QCS-KFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAG-DLRRGITLL  210 (237)
T ss_dssp             TTTTEEEEEEESCGGGSCHHHHH--HSE-EEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSS-CHHHHHHHH
T ss_pred             ccccccccccccccccccccccc--hhh-hhccccccccccchhhhhhhhhhcCcCCHHHHHHHHHHcCC-CHHHHHHHH
Confidence            56677888899999999999988  885 88999999999999999887766654 44558999999887 555555555


Q ss_pred             HHHHHHHHHhhcccccccHHHHHHHH
Q 007255          505 REAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       505 ~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                      +.+...+... ...+.|+..++.+++
T Consensus       211 ~~~~~~~~~~-~~~~~It~~~i~e~~  235 (237)
T d1sxjd2         211 QSASKGAQYL-GDGKNITSTQVEELA  235 (237)
T ss_dssp             HHTHHHHHHH-CSCCCCCHHHHHHHH
T ss_pred             HHHHHhchhc-CCCCccCHHHHHHhh
Confidence            5554433322 234557777766554

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.69  E-value=1.6e-16  Score=154.04  Aligned_cols=188  Identities=15%  Similarity=0.169  Sum_probs=124.7

Q ss_pred             cCCCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE---Eeecchh
Q 007255          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF---FSLSGAE  359 (611)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~---~~~~~~~  359 (611)
                      .+.+.+|++++|++++++.|..++..           + ....++|||||||||||++|+++|+++..+.   ...+...
T Consensus         4 ky~P~~~~diig~~~~~~~L~~~~~~-----------~-~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~   71 (252)
T d1sxje2           4 KYRPKSLNALSHNEELTNFLKSLSDQ-----------P-RDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQ   71 (252)
T ss_dssp             TTCCCSGGGCCSCHHHHHHHHTTTTC-----------T-TCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC-------
T ss_pred             ccCCCCHHHccCcHHHHHHHHHHHHc-----------C-CCCCeEEEECCCCCCHHHHHHHHHHhhcCcccccccccccc
Confidence            34566899999999999999877653           1 2234699999999999999999999862111   1110000


Q ss_pred             hc---------------------cccccc-hHHHHHHHHHHHH--------------hcCCcEEEEcccccccccCCCCC
Q 007255          360 LY---------------------SMYVGE-SEALLRNTFQRAR--------------LAAPSIIFFDEADVVGAKRGGSS  403 (611)
Q Consensus       360 ~~---------------------~~~~g~-~~~~~~~~~~~a~--------------~~~p~il~iDeid~l~~~~~~~~  403 (611)
                      ..                     ....+. .........+...              .....+++|||+|.+.       
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~-------  144 (252)
T d1sxje2          72 FVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLT-------  144 (252)
T ss_dssp             -----------CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSC-------
T ss_pred             ccccccchhhhhhccCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccc-------
Confidence            00                     000000 1111122221111              1123499999999872       


Q ss_pred             CCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcC--CCCCC
Q 007255          404 STSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRN--MKVGD  481 (611)
Q Consensus       404 ~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~--~~~~~  481 (611)
                             ....+.|++.++  .+..++.+|++||.++.+++++++  ||. .|.|++|+.++..++++..+..  .....
T Consensus       145 -------~~~~~~l~~~~e--~~~~~~~~Il~tn~~~~i~~~l~s--R~~-~i~~~~~~~~~~~~~l~~i~~~e~~~~~~  212 (252)
T d1sxje2         145 -------KDAQAALRRTME--KYSKNIRLIMVCDSMSPIIAPIKS--QCL-LIRCPAPSDSEISTILSDVVTNERIQLET  212 (252)
T ss_dssp             -------HHHHHHHHHHHH--HSTTTEEEEEEESCSCSSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCEECC
T ss_pred             -------cccchhhhcccc--cccccccceeeeccccchhhhhhc--chh-eeeecccchhhHHHHHHHHHHHcCCCCCc
Confidence                   345677777777  466778899999999999999998  995 8999999999999999876654  34445


Q ss_pred             cccHHHHHHhCCCCCHHHHHHHHH
Q 007255          482 DVDLRSIAEETELFTGAELEGLCR  505 (611)
Q Consensus       482 ~~~~~~la~~~~g~s~~~i~~~~~  505 (611)
                      +..++.++..+.|    |++.++.
T Consensus       213 ~~~l~~i~~~s~G----d~R~ai~  232 (252)
T d1sxje2         213 KDILKRIAQASNG----NLRVSLL  232 (252)
T ss_dssp             SHHHHHHHHHHTT----CHHHHHH
T ss_pred             HHHHHHHHHHcCC----cHHHHHH
Confidence            5557888988777    4555443

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=99.66  E-value=5.7e-19  Score=178.79  Aligned_cols=189  Identities=15%  Similarity=0.061  Sum_probs=123.7

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccccccccC
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR  399 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~  399 (611)
                      |.+.++++|||||||||||++|+++|+.++.+++++++++..+.+            .......+.+.++|+++.....+
T Consensus       150 ~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s~~rs~~------------~l~~~~~~~~~l~d~~~~~~~~~  217 (362)
T d1svma_         150 NIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNF------------ELGVAIDQFLVVFEDVKGTGGES  217 (362)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHH------------HHGGGTTCSCEEETTCCCSTTTT
T ss_pred             CCCCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECcchhhHH------------HHHhHHHHHHHHHHHHHHhhhhc
Confidence            667778999999999999999999999999999999998875543            11222334466677776554333


Q ss_pred             CCCCCCCcchhHHHHHHHHHHhcCCCC------CC------CeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHH
Q 007255          400 GGSSSTSITVGERLLSTLLTEMDGLEQ------AK------GILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARH  467 (611)
Q Consensus       400 ~~~~~~~~~~~~~~~~~ll~~l~~~~~------~~------~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~  467 (611)
                      .....   ...-.-+..+...+||...      ..      ...+|+|||.   ++.+++||+||+..+++..|+...|.
T Consensus       218 ~~~~~---~~~~DeiD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~---~~~~~~r~~Rf~~~i~~~~~~~~~~~  291 (362)
T d1svma_         218 RDLPS---GQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNE---YSVPKTLQARFVKQIDFRPKDYLKHC  291 (362)
T ss_dssp             TTCCC---CSHHHHHHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECS---CCCCHHHHTTEEEEEECCCCHHHHHH
T ss_pred             cCCCC---eEEEehHhhcccccCCcchhhhhhhhhchhhhccCCceeeccc---ccccccccccCceEEeecCCCcHHHH
Confidence            22111   0111122334444554211      00      1237789995   56777889999999999988877664


Q ss_pred             -HHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHH
Q 007255          468 -EILRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVK  530 (611)
Q Consensus       468 -~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l  530 (611)
                       .++..++++..+.  .+.+.|+..+.|++++|+..+++++...+.++.  ...+....|....
T Consensus       292 ~~~l~~i~~~~~l~--~~~~~L~~li~~~s~~D~~~~i~~~~~~~~~~l--~~ei~~~~~~~~k  351 (362)
T d1svma_         292 LERSEFLLEKRIIQ--SGIALLLMLIWYRPVAEFAQSIQSRIVEWKERL--DKEFSLSVYQKMK  351 (362)
T ss_dssp             HHTCTHHHHTTCTT--CHHHHHHHHHHHSCGGGSCGGGHHHHHHHHHHH--HHHCCHHHHHHHH
T ss_pred             HHHHHHHhcccCCC--CCHHHHHHHccCCCHHHHHHHHHHHHHHHHHHH--hhhccHHHHHHHH
Confidence             4555556655543  456778888889999999999998876665442  2334444444433

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.64  E-value=9.8e-16  Score=148.47  Aligned_cols=195  Identities=20%  Similarity=0.310  Sum_probs=126.7

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCch----HHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSS----QAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~----~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~   91 (611)
                      +.|++++|+++.++.|.+++........    .....+....+++||+||||||||++|+++|++++.+++.++.+....
T Consensus        11 ~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~~~~   90 (253)
T d1sxja2          11 TNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRS   90 (253)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCC
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhccccccchh
Confidence            6789999999999999998865211111    112234456689999999999999999999999999999999876543


Q ss_pred             ccccchHHHHHHHHH--------------HHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC
Q 007255           92 AHVGESEKALREAFS--------------QASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK  157 (611)
Q Consensus        92 ~~~~~~~~~l~~~f~--------------~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  157 (611)
                      ...      +.....              .........++.++++||+|.+.....       .....++.......   
T Consensus        91 ~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~-------~~~~~~~~~~~~~~---  154 (253)
T d1sxja2          91 KTL------LNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDR-------GGVGQLAQFCRKTS---  154 (253)
T ss_dssp             HHH------HHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTST-------THHHHHHHHHHHCS---
T ss_pred             hHH------HHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchh-------hhhHHHhhhhcccc---
Confidence            211      111000              011111234567999999998865431       12333444443321   


Q ss_pred             CCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcC--CCCCCcccHHHHHHhccCCccccHHH
Q 007255          158 TSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK--VPLDANVDLEAIATSCNGYVGADLEA  235 (611)
Q Consensus       158 ~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~--~~~~~~~~~~~la~~~~g~~~~dl~~  235 (611)
                         ..++++++++....++ .+++  | ...+.|++|+.+++..+++..+..  ..++. ..++.++..+.|    |++.
T Consensus       155 ---~~ii~i~~~~~~~~~~-~l~~--~-~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~-~~l~~i~~~s~G----DiR~  222 (253)
T d1sxja2         155 ---TPLILICNERNLPKMR-PFDR--V-CLDIQFRRPDANSIKSRLMTIAIREKFKLDP-NVIDRLIQTTRG----DIRQ  222 (253)
T ss_dssp             ---SCEEEEESCTTSSTTG-GGTT--T-SEEEECCCCCHHHHHHHHHHHHHHHTCCCCT-THHHHHHHHTTT----CHHH
T ss_pred             ---cccccccccccccccc-cccc--e-eeeeeccccchhHHHHHHHHHHHHhCCCCCH-HHHHHHHHhCCC----cHHH
Confidence               1355555555544454 4554  4 468999999999999999998864  33333 357888887765    6655


Q ss_pred             HHH
Q 007255          236 LCR  238 (611)
Q Consensus       236 l~~  238 (611)
                      ++.
T Consensus       223 ai~  225 (253)
T d1sxja2         223 VIN  225 (253)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.62  E-value=6.3e-16  Score=140.20  Aligned_cols=158  Identities=21%  Similarity=0.348  Sum_probs=118.6

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEcc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVISP   86 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~~   86 (611)
                      .++.++|.++.++++.+.+..             +..+|++|+||||+|||++++.+|+.+          +..++.++.
T Consensus        20 ~ld~~igRd~Ei~~l~~iL~r-------------~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~   86 (195)
T d1jbka_          20 KLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM   86 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECH
T ss_pred             CCCCCcCcHHHHHHHHHHHhc-------------cCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeH
Confidence            467899999999999888743             345799999999999999999999865          567999999


Q ss_pred             ccccc--ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           87 HSVHK--AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        87 ~~~~~--~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      +.+..  .+.|+.+..+..++++.....   ...||||||++.+.....+.+.  ..+.+.|...+...        .+.
T Consensus        87 ~~LiAg~~~rG~~E~rl~~il~e~~~~~---~~iILfIDeih~l~~~g~~~g~--~d~~~~Lkp~L~rg--------~l~  153 (195)
T d1jbka_          87 GALVAGAKYRGEFEERLKGVLNDLAKQE---GNVILFIDELHTMVGAGKADGA--MDAGNMLKPALARG--------ELH  153 (195)
T ss_dssp             HHHHTTTCSHHHHHHHHHHHHHHHHHST---TTEEEEEETGGGGTT------C--CCCHHHHHHHHHTT--------SCC
T ss_pred             HHHhccCCccHHHHHHHHHHHHHHhcCC---CcEEEEcchHHHHhcCCCCCCc--ccHHHHHHHHHhCC--------Cce
Confidence            88773  456788888988888764331   2579999999999876533211  13445566666642        467


Q ss_pred             EEEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHH
Q 007255          165 VVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEIL  203 (611)
Q Consensus       165 ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il  203 (611)
                      +|++|++.+     .-|++|.+  ||. .|.++.|+.++-..|+
T Consensus       154 ~IgatT~eey~~~~e~d~aL~r--rF~-~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         154 CVGATTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             EEEEECHHHHHHHTTTCHHHHT--TEE-EEECCCCCHHHHHTTC
T ss_pred             EEecCCHHHHHHHHHcCHHHHh--cCC-EeecCCCCHHHHHHHh
Confidence            888887643     44899998  995 8999999999887765

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.62  E-value=2.7e-15  Score=144.10  Aligned_cols=162  Identities=23%  Similarity=0.345  Sum_probs=122.9

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEcc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVISP   86 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~~   86 (611)
                      .++.++|.++.+++|.+.+..             +..+|++|+||||+|||++++.+|+.+          +..++.++.
T Consensus        16 ~ld~~igRd~Ei~~l~~iL~r-------------~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~   82 (268)
T d1r6bx2          16 GIDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDI   82 (268)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCC
T ss_pred             CCCcccChHHHHHHHHHHHhc-------------CccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeee
Confidence            467899999999999988732             345799999999999999999999874          567899999


Q ss_pred             ccccc--ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEE
Q 007255           87 HSVHK--AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (611)
Q Consensus        87 ~~~~~--~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~  164 (611)
                      +.+..  .+.|+.+..+..+++.+...    ...||||||+|.++..+...+ ....+.+.|...+.        .+.+.
T Consensus        83 ~~liag~~~~g~~e~r~~~i~~~~~~~----~~iIlfiDeih~l~~~g~~~g-~~~d~a~~Lkp~L~--------rg~i~  149 (268)
T d1r6bx2          83 GSLLAGTKYRGDFEKRFKALLKQLEQD----TNSILFIDEIHTIIGAGAASG-GQVDAANLIKPLLS--------SGKIR  149 (268)
T ss_dssp             C---CCCCCSSCHHHHHHHHHHHHSSS----SCEEEEETTTTTTTTSCCSSS-CHHHHHHHHSSCSS--------SCCCE
T ss_pred             chHhccCccchhHHHHHHHHHHHhhcc----CCceEEecchHHHhcCCCCCC-ccccHHHHhhHHHh--------CCCCe
Confidence            88874  67889999999999887643    368999999999987654322 12233333333333        23588


Q ss_pred             EEEeecCcc-----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhh
Q 007255          165 VVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYT  207 (611)
Q Consensus       165 ii~ttn~~~-----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~  207 (611)
                      +|++|++.+     .-|++|.+  ||. .|.++.|+.++-..|++...
T Consensus       150 vIgatT~eey~~~~e~d~al~r--rF~-~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         150 VIGSTTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             EEEEECHHHHHCCCCCTTSSGG--GEE-EEECCCCCHHHHHHHHHHHH
T ss_pred             EEEeCCHHHHHHHHhhcHHHHh--hhc-ccccCCCCHHHHHHHHHHhh
Confidence            999988743     45899998  995 89999999999999998644

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.62  E-value=2e-15  Score=146.17  Aligned_cols=182  Identities=20%  Similarity=0.272  Sum_probs=117.3

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc---EEEEcccc---
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---LTVISPHS---   88 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~---~~~v~~~~---   88 (611)
                      .+.|++++|++++++.|..++..            -..+.++||+||||||||++|+++|+++...   ...++...   
T Consensus         7 P~~~~diig~~~~~~~L~~~~~~------------~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~   74 (252)
T d1sxje2           7 PKSLNALSHNEELTNFLKSLSDQ------------PRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVT   74 (252)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTC------------TTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC----------
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc------------CCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccc
Confidence            46889999999999999876532            1234579999999999999999999987211   11110000   


Q ss_pred             ------------------cccccccc-hHHHHHHHHHHHHh----------hhhcCCCeEEEEccccccCCCCCCCchhh
Q 007255           89 ------------------VHKAHVGE-SEKALREAFSQASS----------HALSGKPSVVFIDEIDALCPRRDHRREQD  139 (611)
Q Consensus        89 ------------------~~~~~~~~-~~~~l~~~f~~~~~----------~~~~~~~~il~IDeid~l~~~~~~~~~~~  139 (611)
                                        ......+. ..............          ........+++|||+|.+..         
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~---------  145 (252)
T d1sxje2          75 ASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTK---------  145 (252)
T ss_dssp             --------CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCH---------
T ss_pred             cccchhhhhhccCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEecccccccc---------
Confidence                              00000010 01111111111110          00112345999999998843         


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCC--CCCCccc
Q 007255          140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV--PLDANVD  217 (611)
Q Consensus       140 ~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~--~~~~~~~  217 (611)
                       ..+..++..++..      ..++.+|++||.++.+++++++  || ..|+|++|+.++..++++..+...  ....+..
T Consensus       146 -~~~~~l~~~~e~~------~~~~~~Il~tn~~~~i~~~l~s--R~-~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~~~~  215 (252)
T d1sxje2         146 -DAQAALRRTMEKY------SKNIRLIMVCDSMSPIIAPIKS--QC-LLIRCPAPSDSEISTILSDVVTNERIQLETKDI  215 (252)
T ss_dssp             -HHHHHHHHHHHHS------TTTEEEEEEESCSCSSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTCEECCSHH
T ss_pred             -ccchhhhcccccc------cccccceeeeccccchhhhhhc--ch-heeeecccchhhHHHHHHHHHHHcCCCCCcHHH
Confidence             4566777888763      2357889999999999999998  98 489999999999999998877653  3333444


Q ss_pred             HHHHHHhccC
Q 007255          218 LEAIATSCNG  227 (611)
Q Consensus       218 ~~~la~~~~g  227 (611)
                      ++.++..+.|
T Consensus       216 l~~i~~~s~G  225 (252)
T d1sxje2         216 LKRIAQASNG  225 (252)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHcCC
Confidence            6778887766

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.61  E-value=1.2e-14  Score=139.04  Aligned_cols=179  Identities=18%  Similarity=0.241  Sum_probs=123.0

Q ss_pred             cccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh------CCcEEEEcccc
Q 007255           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC------GAHLTVISPHS   88 (611)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l------~~~~~~v~~~~   88 (611)
                      .++|++++|++++++.|+.++..             ....+++|+||||||||++++++|+++      ......++.+.
T Consensus         8 P~~~~diig~~~~~~~l~~~i~~-------------~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~   74 (237)
T d1sxjd2           8 PKNLDEVTAQDHAVTVLKKTLKS-------------ANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASD   74 (237)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTC-------------TTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSS
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc-------------CCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccc
Confidence            46899999999999999887632             123569999999999999999999986      45566666554


Q ss_pred             cccccccchHHHHHHHHHHH--------HhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCC
Q 007255           89 VHKAHVGESEKALREAFSQA--------SSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSV  160 (611)
Q Consensus        89 ~~~~~~~~~~~~l~~~f~~~--------~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  160 (611)
                      ......  ....+.......        ..........|++|||+|.+..          .....++..++....     
T Consensus        75 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~----------~~~~~l~~~~~~~~~-----  137 (237)
T d1sxjd2          75 ERGISI--VREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTA----------DAQSALRRTMETYSG-----  137 (237)
T ss_dssp             CCCHHH--HTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCH----------HHHHHHHHHHHHTTT-----
T ss_pred             cccchH--HHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCH----------HHHHHHhhccccccc-----
Confidence            321100  001111110000        0000122345999999998854          334556666665332     


Q ss_pred             CcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHhccC
Q 007255          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNG  227 (611)
Q Consensus       161 ~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~-~~~~~~la~~~~g  227 (611)
                       +..+|.+++..+.+.+++++  || ..+.|++|+.++...+++..+......- +..++.+++.+.|
T Consensus       138 -~~~~i~~~~~~~~~~~~l~s--r~-~~i~f~~~~~~~~~~~L~~i~~~e~i~i~~~~l~~ia~~s~g  201 (237)
T d1sxjd2         138 -VTRFCLICNYVTRIIDPLAS--QC-SKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAG  201 (237)
T ss_dssp             -TEEEEEEESCGGGSCHHHHH--HS-EEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSS
T ss_pred             -cccccccccccccccccccc--hh-hhhccccccccccchhhhhhhhhhcCcCCHHHHHHHHHHcCC
Confidence             46778888888999999998  88 5899999999999999999887766543 3347888888765

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=99.58  E-value=8.1e-16  Score=156.23  Aligned_cols=199  Identities=23%  Similarity=0.332  Sum_probs=124.8

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----------~~~~~~v~   85 (611)
                      -.++.++|.++.++++.+++..             +..+|++|+||||+|||++++.+|+.+          +..++.++
T Consensus        19 g~ld~~~gr~~ei~~~~~~L~r-------------~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld   85 (387)
T d1qvra2          19 GKLDPVIGRDEEIRRVIQILLR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQ   85 (387)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHHC-------------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEEC
T ss_pred             CCCCCCcCcHHHHHHHHHHHhc-------------CCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEee
Confidence            4578899999999999998753             345788999999999999999999865          45789999


Q ss_pred             cccccc--ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcE
Q 007255           86 PHSVHK--AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (611)
Q Consensus        86 ~~~~~~--~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v  163 (611)
                      .+.+..  .+.|+.+..+..++..+...   ..+.||||||+|.++..+.+.+  ...+.+.|...|...        .+
T Consensus        86 ~~~l~ag~~~~g~~e~r~~~i~~~~~~~---~~~~ilfide~h~l~~~g~~~g--~~d~a~~Lkp~L~rg--------~~  152 (387)
T d1qvra2          86 MGSLLAGAKYRGEFEERLKAVIQEVVQS---QGEVILFIDELHTVVGAGKAEG--AVDAGNMLKPALARG--------EL  152 (387)
T ss_dssp             C-----------CHHHHHHHHHHHHHTT---CSSEEEEECCC---------------------HHHHHTT--------CC
T ss_pred             HhhhhcccCcchhHHHHHHHHHHHhccC---CCceEEEeccHHHHhcCCCCCC--cccHHHHHHHHHhCC--------Cc
Confidence            998874  56789999999888887543   1367899999999987654322  234556666666642        46


Q ss_pred             EEEEeecCcc----cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCC----CCC-CcccHHHHHHhccCC-----c
Q 007255          164 VVVASTNRVD----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV----PLD-ANVDLEAIATSCNGY-----V  229 (611)
Q Consensus       164 ~ii~ttn~~~----~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~----~~~-~~~~~~~la~~~~g~-----~  229 (611)
                      .+|++|++.+    .=|++|.|  ||. .|.++.|+.++-..|++.....+    .+. .+.-+...+..+..|     -
T Consensus       153 ~~I~~tT~~ey~~~e~d~al~r--rF~-~v~v~ep~~~~~~~il~~~~~~~e~~h~v~~~~~ai~~~v~ls~ryi~~r~~  229 (387)
T d1qvra2         153 RLIGATTLDEYREIEKDPALER--RFQ-PVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRL  229 (387)
T ss_dssp             CEEEEECHHHHHHHTTCTTTCS--CCC-CEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCT
T ss_pred             ceeeecCHHHHHHhcccHHHHH--hcc-cccCCCCcHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHhcccccccccC
Confidence            7888887633    33899988  996 89999999999999998655432    221 122255555554433     2


Q ss_pred             cccHHHHHHHHHHH
Q 007255          230 GADLEALCREATMS  243 (611)
Q Consensus       230 ~~dl~~l~~~a~~~  243 (611)
                      +.-.-.++++|+..
T Consensus       230 PdKAidlld~a~a~  243 (387)
T d1qvra2         230 PDKAIDLIDEAAAR  243 (387)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHH
Confidence            33344556666544

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=99.57  E-value=1.4e-14  Score=142.46  Aligned_cols=229  Identities=12%  Similarity=-0.030  Sum_probs=143.1

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcCCCC---CCCcceeCCCCCChHHHHHHHHHHhC---------CcEEee
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISP---VRGALLHGPPGCSKTTLAKAAAHAAE---------ASFFSL  355 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~---~~~~Ll~Gp~G~GKT~la~ala~~~~---------~~~~~~  355 (611)
                      ..+.+.|.+...+.+...+..++.+       |..+   ...++|+||||||||++++++++.+.         ..+..+
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~-------~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~   86 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLS-------GAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYV   86 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHT-------SSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHc-------CCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeee
Confidence            3456778777777777665432221       2122   22467899999999999999999872         233334


Q ss_pred             cchhhcc----------------ccccchHHHH-HHHHHHHH-hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHH
Q 007255          356 SGAELYS----------------MYVGESEALL-RNTFQRAR-LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (611)
Q Consensus       356 ~~~~~~~----------------~~~g~~~~~~-~~~~~~a~-~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~l  417 (611)
                      ++.....                .+.+.....+ ..+..... ...+.++++||+|.+......     .......+..+
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~-----~~~~~~~l~~l  161 (287)
T d1w5sa2          87 NAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRI-----AAEDLYTLLRV  161 (287)
T ss_dssp             EGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTS-----CHHHHHHHHTH
T ss_pred             ccccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEecccccc-----chhHHHHHHHH
Confidence            3332211                1223333333 33333333 234568889999998644321     11112223333


Q ss_pred             HHHhcCCCCCCCeEEEEecCCCcc------cchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCC---CCcccHHHH
Q 007255          418 LTEMDGLEQAKGILVLAATNRPHA------IDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKV---GDDVDLRSI  488 (611)
Q Consensus       418 l~~l~~~~~~~~~~vI~~tn~~~~------ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~---~~~~~~~~l  488 (611)
                      ...+........+.+|+++|.++.      .++.+.+  ||...++|+.|+.++..+|++..++....   .++..++.+
T Consensus       162 ~~~l~~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~--r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~i  239 (287)
T d1w5sa2         162 HEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELI  239 (287)
T ss_dssp             HHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHH
T ss_pred             HHhcchhhcccceeEEeecccHHHHHHHHhhccchhc--ccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHH
Confidence            444444455667788888877663      3356666  89999999999999999999976643222   233447777


Q ss_pred             HHhCCC-----CCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhh
Q 007255          489 AEETEL-----FTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDS  532 (611)
Q Consensus       489 a~~~~g-----~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~  532 (611)
                      |+.+..     -..+.+..+|+.|...|..+.  ...|+.+|+..|+.+
T Consensus       240 a~~~~~~~~~~gd~R~ai~~l~~a~~~A~~~~--~~~It~~~V~~A~~e  286 (287)
T d1w5sa2         240 SDVYGEDKGGDGSARRAIVALKMACEMAEAMG--RDSLSEDLVRKAVSE  286 (287)
T ss_dssp             HHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTT--CSSCCHHHHHHHHHH
T ss_pred             HHHHhccccCCCCHHHHHHHHHHHHHHHHHcC--CCCCCHHHHHHHHhc
Confidence            776531     257778888999988887664  567999999988753

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.57  E-value=1.1e-14  Score=135.93  Aligned_cols=170  Identities=15%  Similarity=0.171  Sum_probs=118.8

Q ss_pred             chhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCc----------------------
Q 007255          294 GLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS----------------------  351 (611)
Q Consensus       294 g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~----------------------  351 (611)
                      .++.+.+.|...+..            .+.++++||+||||+|||++|+++|+.+.+.                      
T Consensus         6 w~~~~~~~l~~~~~~------------~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~   73 (207)
T d1a5ta2           6 WLRPDFEKLVASYQA------------GRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTH   73 (207)
T ss_dssp             GGHHHHHHHHHHHHT------------TCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCC
T ss_pred             ccHHHHHHHHHHHHc------------CCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccc
Confidence            345566666666552            3557789999999999999999999987322                      


Q ss_pred             --EEeecchhhccccccchHHHHHHHHHHHHh----cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC
Q 007255          352 --FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE  425 (611)
Q Consensus       352 --~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~----~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  425 (611)
                        ++.+...+-   -..-....++.+.+.+..    ....|++|||+|.+              .....+.|++.|+  +
T Consensus        74 ~~~~~~~~~~~---~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l--------------~~~a~n~Llk~lE--e  134 (207)
T d1a5ta2          74 PDYYTLAPEKG---KNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALL--------------TDAAANALLKTLE--E  134 (207)
T ss_dssp             TTEEEECCCTT---CSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGB--------------CHHHHHHHHHHHT--S
T ss_pred             cccchhhhhhc---ccccccchhhHHhhhhhhccccCccceEEechhhhh--------------hhhhhHHHHHHHH--h
Confidence              111111100   001123345555554432    23459999999987              3567899999999  6


Q ss_pred             CCCCeEEEEecCCCcccchhccCCCCccceeecCCCCHHHHHHHHHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHH
Q 007255          426 QAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTRNMKVGDDVDLRSIAEETELFTGAELEG  502 (611)
Q Consensus       426 ~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~  502 (611)
                      ++.+++||++|+.++.+.+++++  |+. .+.|++|+.++...+++...   .+ ++..+..+++.++| +.+++-+
T Consensus       135 p~~~~~fIl~t~~~~~ll~tI~S--Rc~-~i~~~~~~~~~~~~~L~~~~---~~-~~~~~~~i~~~s~G-s~r~al~  203 (207)
T d1a5ta2         135 PPAETWFFLATREPERLLATLRS--RCR-LHYLAPPPEQYAVTWLSREV---TM-SQDALLAALRLSAG-SPGAALA  203 (207)
T ss_dssp             CCTTEEEEEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHC---CC-CHHHHHHHHHHTTT-CHHHHHH
T ss_pred             hcccceeeeeecChhhhhhhhcc--eeE-EEecCCCCHHHHHHHHHHcC---CC-CHHHHHHHHHHcCC-CHHHHHH
Confidence            78899999999999999999998  985 99999999999888886322   22 34557778888776 5554433

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.56  E-value=2.5e-14  Score=133.97  Aligned_cols=193  Identities=21%  Similarity=0.302  Sum_probs=127.5

Q ss_pred             CCccccccc-c--hhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecch
Q 007255          285 PKVTWEDIG-G--LRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGA  358 (611)
Q Consensus       285 ~~~~~~~i~-g--~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~  358 (611)
                      |+.+|++.+ |  .+.+.+.+.+++.++          + ...+.++||||+|||||+|++|+|+++   +..++.++..
T Consensus         5 ~~~tFdnF~vg~~N~~a~~~~~~~~~~~----------~-~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~   73 (213)
T d1l8qa2           5 PKYTLENFIVGEGNRLAYEVVKEALENL----------G-SLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSAD   73 (213)
T ss_dssp             TTCCSSSCCCCTTTHHHHHHHHHHHHTT----------T-TSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CCCChhhccCCCcHHHHHHHHHHHHhCc----------C-CCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechH
Confidence            567788853 4  455566666666542          1 222458999999999999999999987   5677888877


Q ss_pred             hhccccccchH-HHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecC
Q 007255          359 ELYSMYVGESE-ALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATN  437 (611)
Q Consensus       359 ~~~~~~~g~~~-~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn  437 (611)
                      ++...+..... .....++...+  ..++|+|||+|.+.++            ......|...++.....++.++|.++.
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~--~~dll~iDDi~~i~~~------------~~~~~~lf~lin~~~~~~~~iiits~~  139 (213)
T d1l8qa2          74 DFAQAMVEHLKKGTINEFRNMYK--SVDLLLLDDVQFLSGK------------ERTQIEFFHIFNTLYLLEKQIILASDR  139 (213)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHH--TCSEEEEECGGGGTTC------------HHHHHHHHHHHHHHHHTTCEEEEEESS
T ss_pred             HHHHHHHHHHHccchhhHHHHHh--hccchhhhhhhhhcCc------------hHHHHHHHHHHHHHhhccceEEEecCC
Confidence            77654332211 11223333222  4569999999999643            223334444444445667778888888


Q ss_pred             CCcccc---hhccCCCCcc--ceeecCCCCHHHHHHHHHHHhcCCCCC-CcccHHHHHHhCCCCCHHHHHHHHHHH
Q 007255          438 RPHAID---AALMRPGRFD--LVLYVPPPDLEARHEILRVHTRNMKVG-DDVDLRSIAEETELFTGAELEGLCREA  507 (611)
Q Consensus       438 ~~~~ld---~al~r~gRf~--~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~s~~~i~~~~~~a  507 (611)
                      .|..++   +.+.+  |+.  .++.++ |+.++|.++++..+...++. ++..++.|++.+.  +.++++.+++..
T Consensus       140 ~p~~l~~~~~dL~S--RL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~~~v~~yl~~~~~--~~R~L~~~l~~l  210 (213)
T d1l8qa2         140 HPQKLDGVSDRLVS--RFEGGILVEIE-LDNKTRFKIIKEKLKEFNLELRKEVIDYLLENTK--NVREIEGKIKLI  210 (213)
T ss_dssp             CGGGCTTSCHHHHH--HHHTSEEEECC-CCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHCS--SHHHHHHHHHHH
T ss_pred             cchhccccchHHHH--HhhCceEEEEC-CCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcC--cHHHHHHHHHHh
Confidence            887664   55665  665  566675 67789999999777665555 3445788888764  578888877643

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.54  E-value=1.1e-13  Score=134.90  Aligned_cols=222  Identities=15%  Similarity=0.101  Sum_probs=143.4

Q ss_pred             CcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh----CCcEEeecchhhc
Q 007255          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELY  361 (611)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~~~~~~  361 (611)
                      ....+.++|.+...+.+.+++...+..+      + .++.++||+||||||||++|+++++.+    +..++.+++....
T Consensus        12 ~y~p~~l~~Re~ei~~l~~~l~~~l~~~------~-~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~   84 (276)
T d1fnna2          12 SYVPKRLPHREQQLQQLDILLGNWLRNP------G-HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYR   84 (276)
T ss_dssp             TCCCSCCTTCHHHHHHHHHHHHHHHHST------T-SSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCC
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHhCC------C-CCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhh
Confidence            3345678899988888888876432221      2 456789999999999999999999987    3445555543221


Q ss_pred             c----------------ccccch-HHHHHHHHHHHHh-cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcC
Q 007255          362 S----------------MYVGES-EALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (611)
Q Consensus       362 ~----------------~~~g~~-~~~~~~~~~~a~~-~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~  423 (611)
                      .                .+.+.. ......+.+.... ..+.++++|++|.+..              .....+...+..
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~--------------~~~~~~~~~~~~  150 (276)
T d1fnna2          85 NFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAP--------------DILSTFIRLGQE  150 (276)
T ss_dssp             SHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCH--------------HHHHHHHHHTTC
T ss_pred             hhhhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhh--------------hhhhhHHHHHhc
Confidence            1                112222 2233334443333 3456888999987631              122222222221


Q ss_pred             C--CCCCCeEEEEecCCCc---ccchhccCCCCcc-ceeecCCCCHHHHHHHHHHHhcCCC---CCCcccHHHHHHhC--
Q 007255          424 L--EQAKGILVLAATNRPH---AIDAALMRPGRFD-LVLYVPPPDLEARHEILRVHTRNMK---VGDDVDLRSIAEET--  492 (611)
Q Consensus       424 ~--~~~~~~~vI~~tn~~~---~ld~al~r~gRf~-~~i~~~~p~~~~r~~il~~~~~~~~---~~~~~~~~~la~~~--  492 (611)
                      .  ....++.+|++++.+.   .+++.+.+  |+. ..|.|++|+.+++.+|++..++...   ..++..++.+++.+  
T Consensus       151 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~--r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~  228 (276)
T d1fnna2         151 ADKLGAFRIALVIVGHNDAVLNNLDPSTRG--IMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGA  228 (276)
T ss_dssp             HHHHSSCCEEEEEEESSTHHHHTSCHHHHH--HHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSB
T ss_pred             cccccccceEEeecCCchhhhhhcchhhhh--hhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhh
Confidence            1  2345678888888754   56777776  553 5689999999999999986654322   22344466666653  


Q ss_pred             -------CCCCHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHhhc
Q 007255          493 -------ELFTGAELEGLCREAGIVALREDISATAVRNRHFQTVKDSL  533 (611)
Q Consensus       493 -------~g~s~~~i~~~~~~a~~~a~~~~~~~~~i~~~~~~~~l~~~  533 (611)
                             .| +.+.+.++|+.|...|..+.  ...|+.+|+..|++++
T Consensus       229 ~~~~~~~~G-~~R~a~~ll~~a~~~A~~~~--~~~I~~edv~~A~~~~  273 (276)
T d1fnna2         229 QTPLDTNRG-DARLAIDILYRSAYAAQQNG--RKHIAPEDVRKSSKEV  273 (276)
T ss_dssp             SSTTCTTSC-CHHHHHHHHHHHHHHHHHTT--CSSCCHHHHHHHHHHH
T ss_pred             hhhhhhcCC-CHHHHHHHHHHHHHHHHHcC--CCCcCHHHHHHHHHHH
Confidence                   23 56788889999988887764  4579999999998764

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.53  E-value=2.3e-13  Score=126.96  Aligned_cols=171  Identities=20%  Similarity=0.193  Sum_probs=120.4

Q ss_pred             CcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCc----------------------
Q 007255           23 GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH----------------------   80 (611)
Q Consensus        23 G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~----------------------   80 (611)
                      +++.+.+.|...+..            -+.|.++||+||||+|||++++.+|+.+...                      
T Consensus         6 w~~~~~~~l~~~~~~------------~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~   73 (207)
T d1a5ta2           6 WLRPDFEKLVASYQA------------GRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTH   73 (207)
T ss_dssp             GGHHHHHHHHHHHHT------------TCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCC
T ss_pred             ccHHHHHHHHHHHHc------------CCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccc
Confidence            577778888777643            2356779999999999999999999987421                      


Q ss_pred             --EEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCC
Q 007255           81 --LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKT  158 (611)
Q Consensus        81 --~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  158 (611)
                        +..+....-   ........++.+.+........++..|++|||+|.|..          ..++.|+..|+..     
T Consensus        74 ~~~~~~~~~~~---~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~----------~a~n~Llk~lEep-----  135 (207)
T d1a5ta2          74 PDYYTLAPEKG---KNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTD----------AAANALLKTLEEP-----  135 (207)
T ss_dssp             TTEEEECCCTT---CSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCH----------HHHHHHHHHHTSC-----
T ss_pred             cccchhhhhhc---ccccccchhhHHhhhhhhccccCccceEEechhhhhhh----------hhhHHHHHHHHhh-----
Confidence              122211110   01112344556655554444455677999999999854          6789999999973     


Q ss_pred             CCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHhccCCccc
Q 007255          159 SVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGA  231 (611)
Q Consensus       159 ~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~  231 (611)
                       +.++.+|.+|+.++.+.+.+++  |+ ..+.|++|+.++...+++...   ..+ +..+..++..++|-.+.
T Consensus       136 -~~~~~fIl~t~~~~~ll~tI~S--Rc-~~i~~~~~~~~~~~~~L~~~~---~~~-~~~~~~i~~~s~Gs~r~  200 (207)
T d1a5ta2         136 -PAETWFFLATREPERLLATLRS--RC-RLHYLAPPPEQYAVTWLSREV---TMS-QDALLAALRLSAGSPGA  200 (207)
T ss_dssp             -CTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHC---CCC-HHHHHHHHHHTTTCHHH
T ss_pred             -cccceeeeeecChhhhhhhhcc--ee-EEEecCCCCHHHHHHHHHHcC---CCC-HHHHHHHHHHcCCCHHH
Confidence             3468999999999999999998  98 589999999999988886532   222 23466677766655443

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=99.53  E-value=1.2e-13  Score=139.38  Aligned_cols=223  Identities=18%  Similarity=0.236  Sum_probs=135.3

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHh-----------------cCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQK-----------------LGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~-----------------~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~   81 (611)
                      ..|+||+++|+.+..++..-+.+.+....                 -...++.++||+||+|||||.+|+++|+.++.++
T Consensus        17 ~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~~~~~   96 (364)
T d1um8a_          17 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPI   96 (364)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             CeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhcccce
Confidence            35899999999998887543222111100                 0134678999999999999999999999999999


Q ss_pred             EEEcccccccc-cccc-hHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCC----chhhHHHHHHHHHHHhcCCC
Q 007255           82 TVISPHSVHKA-HVGE-SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKP  155 (611)
Q Consensus        82 ~~v~~~~~~~~-~~~~-~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~----~~~~~~~~~~ll~~l~~~~~  155 (611)
                      +.++++.+... +.|. ....+.++...+.......+.+|+++||+|...+.....    ......+++.|+..++....
T Consensus        97 ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLqild~~~~  176 (364)
T d1um8a_          97 AISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLV  176 (364)
T ss_dssp             EEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEE
T ss_pred             eehhhhhcccchhhHhhhccchhhhhhhchhHHHHhhcccchhhhhhhhccccccccccccccchHHHHhhhhhhcCcee
Confidence            99999887642 2222 234455555544333334457899999999987654211    12345688999999985221


Q ss_pred             C-------CCCCCcEEEEEeecC-------------------------------------------------cccccHHh
Q 007255          156 S-------KTSVPHVVVVASTNR-------------------------------------------------VDAIDPAL  179 (611)
Q Consensus       156 ~-------~~~~~~v~ii~ttn~-------------------------------------------------~~~l~~~l  179 (611)
                      .       .....+.+++.|+|-                                                 ...+.|+|
T Consensus       177 ~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEf  256 (364)
T d1um8a_         177 NIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPEL  256 (364)
T ss_dssp             C---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHH
T ss_pred             ccCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhhhhHHHH
Confidence            0       111123445555443                                                 01256788


Q ss_pred             hccCCcceEEEccCCCHHHHHHHHHHh-----------hcCCCCCC---cccHHHHHHhc--cCCccccHHHHHHHHHHH
Q 007255          180 RRSGRFDAEVEVTVPTAEERFEILKLY-----------TKKVPLDA---NVDLEAIATSC--NGYVGADLEALCREATMS  243 (611)
Q Consensus       180 ~~~~Rf~~~i~~~~p~~~~r~~Il~~~-----------~~~~~~~~---~~~~~~la~~~--~g~~~~dl~~l~~~a~~~  243 (611)
                      ..  |++..+.|.+.+.++..+|+...           +...++..   +.-++.++...  .++-+|.|..+++..+..
T Consensus       257 ~g--Ri~~iv~f~~L~~~~l~~Il~~~~~~l~kq~~~~l~~~gi~L~~td~a~~~la~~g~d~~~GAR~L~riie~~l~~  334 (364)
T d1um8a_         257 IG--RLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDFCLD  334 (364)
T ss_dssp             HT--TCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHH
T ss_pred             HH--HhcchhhHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhccCCCCCchHHHHHHHHHHHH
Confidence            76  99999999999999999999631           11222221   12255565542  445567777777665443

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.51  E-value=2.1e-14  Score=142.91  Aligned_cols=164  Identities=16%  Similarity=0.231  Sum_probs=117.8

Q ss_pred             ccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc------
Q 007255          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM------  363 (611)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~------  363 (611)
                      ..|+||+++++.+.+.+.......   .+ .-.|...+||+||||||||.+|+++|..++.+++.++++++...      
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l---~~-~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~~l   97 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGL---GH-EHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRL   97 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTC---SC-TTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSS
T ss_pred             CeecChHHHHHHHHHHHHHHHccC---CC-CCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhhh
Confidence            357899999999988775311100   00 11334468999999999999999999999999999999988542      


Q ss_pred             ------cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC---------CCC
Q 007255          364 ------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE---------QAK  428 (611)
Q Consensus       364 ------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~  428 (611)
                            |+|..+..  .+.......+.+|+++||+|..              +..+.+.||+.++...         .-.
T Consensus        98 ~g~~~gy~g~~~~~--~l~~~~~~~~~~vvl~DeieKa--------------~~~V~~~lLqild~G~ltd~~Gr~vdf~  161 (315)
T d1r6bx3          98 IGAPPGYVGFDQGG--LLTDAVIKHPHAVLLLDEIEKA--------------HPDVFNILLQVMDNGTLTDNNGRKADFR  161 (315)
T ss_dssp             CCCCSCSHHHHHTT--HHHHHHHHCSSEEEEEETGGGS--------------CHHHHHHHHHHHHHSEEEETTTEEEECT
T ss_pred             cccCCCccccccCC--hhhHHHHhCccchhhhcccccc--------------cchHhhhhHHhhccceecCCCCCccCcc
Confidence                  23322221  2333445566789999999976              3568889998886321         234


Q ss_pred             CeEEEEecCCCc-------------------------ccchhccCCCCccceeecCCCCHHHHHHHHHHHhc
Q 007255          429 GILVLAATNRPH-------------------------AIDAALMRPGRFDLVLYVPPPDLEARHEILRVHTR  475 (611)
Q Consensus       429 ~~~vI~~tn~~~-------------------------~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~~  475 (611)
                      +.++|+|||-..                         .+.|.++.  |++.++.|.+.+.++..+|+...+.
T Consensus       162 n~iiI~Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~ii~f~~l~~~~~~~I~~~~l~  231 (315)
T d1r6bx3         162 NVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIV  231 (315)
T ss_dssp             TEEEEEEECSSCC-----------------CHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             ceEEEeccchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHh--hhhhhhcccchhhhHHHHHHHHHHH
Confidence            688999999421                         25566666  9999999999999999999875543

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=99.50  E-value=2.3e-14  Score=142.24  Aligned_cols=162  Identities=21%  Similarity=0.323  Sum_probs=114.3

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc----
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----  363 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~----  363 (611)
                      .|+||+++++.+.+.+......-    .-.-.|...+||+||+|+|||.+|+++|..+   +.+++.++++++...    
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l----~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~~~   99 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGL----KDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVS   99 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGC----SCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGG
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCC----CCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchhhh
Confidence            57899999999888775321100    0012333467899999999999999999998   778999999877642    


Q ss_pred             --------cccchHHHHHHHHHHHHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC---------C
Q 007255          364 --------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE---------Q  426 (611)
Q Consensus       364 --------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~  426 (611)
                              |+|..+.  ..+.+..+..+.+|+++||+|..              +..+.+.|+..++...         .
T Consensus       100 ~L~g~~~gyvG~~~~--~~l~~~~~~~p~~Vvl~DEieK~--------------~~~v~~~ll~~l~~g~~~~~~gr~v~  163 (315)
T d1qvra3         100 RLIGAPPGYVGYEEG--GQLTEAVRRRPYSVILFDEIEKA--------------HPDVFNILLQILDDGRLTDSHGRTVD  163 (315)
T ss_dssp             GC----------------CHHHHHHHCSSEEEEESSGGGS--------------CHHHHHHHHHHHTTTEECCSSSCCEE
T ss_pred             hhcCCCCCCcCcccC--ChHHHHHHhCCCcEEEEehHhhc--------------CHHHHHHHHHHhccCceeCCCCcEec
Confidence                    4443221  12344555666689999999976              3568888888887531         1


Q ss_pred             CCCeEEEEecCCC--------------------------cccchhccCCCCccceeecCCCCHHHHHHHHHHHh
Q 007255          427 AKGILVLAATNRP--------------------------HAIDAALMRPGRFDLVLYVPPPDLEARHEILRVHT  474 (611)
Q Consensus       427 ~~~~~vI~~tn~~--------------------------~~ld~al~r~gRf~~~i~~~~p~~~~r~~il~~~~  474 (611)
                      ..++++|+|||--                          +.+.|.++.  |||.++.|.+.+.++..+|+...+
T Consensus       164 ~~~~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~Ii~F~~L~~~~~~~I~~~~l  235 (315)
T d1qvra3         164 FRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQL  235 (315)
T ss_dssp             CTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCCCCHHHHHHHHHHHH
T ss_pred             CcceEEEEecccChHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHh--cCCeeeeccchhhhhhHHHHHHHH
Confidence            2368999999952                          236677776  999999999999999999987543

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=99.49  E-value=4.5e-16  Score=157.22  Aligned_cols=178  Identities=13%  Similarity=0.117  Sum_probs=111.8

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccccc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL  128 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l  128 (611)
                      |.+.++++||+||||||||++++++|+.++.+++.+++++..+.+            .-..    ...+.+.++|+++..
T Consensus       150 ~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s~~rs~~------------~l~~----~~~~~~~l~d~~~~~  213 (362)
T d1svma_         150 NIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNF------------ELGV----AIDQFLVVFEDVKGT  213 (362)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHH------------HHGG----GTTCSCEEETTCCCS
T ss_pred             CCCCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECcchhhHH------------HHHh----HHHHHHHHHHHHHHh
Confidence            667778999999999999999999999999999999988653321            1100    112445566766655


Q ss_pred             CCCCCCC-chhhHHHHHHHHHHHhcCCCC---CCCCCcE-----EEEEeecCcccccHHhhccCCcceEEEccCCCHHHH
Q 007255          129 CPRRDHR-REQDVRIASQLFTLMDSNKPS---KTSVPHV-----VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEER  199 (611)
Q Consensus       129 ~~~~~~~-~~~~~~~~~~ll~~l~~~~~~---~~~~~~v-----~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r  199 (611)
                      ....... ...--.-+..+.+.+++....   ......+     .+|+|||.   ++.++.+++||+..+.+.+|+...+
T Consensus       214 ~~~~~~~~~~~~~DeiD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~---~~~~~~r~~Rf~~~i~~~~~~~~~~  290 (362)
T d1svma_         214 GGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNE---YSVPKTLQARFVKQIDFRPKDYLKH  290 (362)
T ss_dssp             TTTTTTCCCCSHHHHHHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECS---CCCCHHHHTTEEEEEECCCCHHHHH
T ss_pred             hhhccCCCCeEEEehHhhcccccCCcchhhhhhhhhchhhhccCCceeeccc---ccccccccccCceEEeecCCCcHHH
Confidence            4333211 111112233344455542110   0000011     37888995   3445556789999999988876655


Q ss_pred             H-HHHHHhhcCCCCCCcccHHHHHHhccCCccccHHHHHHHHHHHHhhh
Q 007255          200 F-EILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKR  247 (611)
Q Consensus       200 ~-~Il~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~~a~~~a~~r  247 (611)
                      . .++...++......  +.+.++..+.++++.|+...++.+.....++
T Consensus       291 ~~~~l~~i~~~~~l~~--~~~~L~~li~~~s~~D~~~~i~~~~~~~~~~  337 (362)
T d1svma_         291 CLERSEFLLEKRIIQS--GIALLLMLIWYRPVAEFAQSIQSRIVEWKER  337 (362)
T ss_dssp             HHHTCTHHHHTTCTTC--HHHHHHHHHHHSCGGGSCGGGHHHHHHHHHH
T ss_pred             HHHHHHHHhcccCCCC--CHHHHHHHccCCCHHHHHHHHHHHHHHHHHH
Confidence            4 44555555554443  4567788888899999998888877665543

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=99.49  E-value=1.2e-13  Score=139.36  Aligned_cols=178  Identities=25%  Similarity=0.286  Sum_probs=111.1

Q ss_pred             cccchhHHHHHHHHHhhccCCCh---h---------------HHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcE
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHS---T---------------AFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF  352 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~---~---------------~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~  352 (611)
                      -|+||+++++.+-.++-...++.   .               .... .-.|+.++||.||+|||||.+|+++|..++.+|
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~-~~~p~~niLfiGPTGvGKTElAk~LA~~~~~~~   96 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEE-VELSKSNILLIGPTGSGKTLMAQTLAKHLDIPI   96 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHH-TTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccccccc-ccCCCcceeeeCCCCccHHHHHHHHHhhcccce
Confidence            48899999998876653111100   0               0011 235678899999999999999999999999999


Q ss_pred             Eeecchhhcc-ccccch-HHHHHHHHHH----HHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCC
Q 007255          353 FSLSGAELYS-MYVGES-EALLRNTFQR----ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ  426 (611)
Q Consensus       353 ~~~~~~~~~~-~~~g~~-~~~~~~~~~~----a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  426 (611)
                      +.++++.+.. .|+|.. +..+..+...    .+..+.+|+++||+|...+............+..+.+.||+.||+...
T Consensus        97 ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLqild~~~~  176 (364)
T d1um8a_          97 AISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLV  176 (364)
T ss_dssp             EEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEE
T ss_pred             eehhhhhcccchhhHhhhccchhhhhhhchhHHHHhhcccchhhhhhhhccccccccccccccchHHHHhhhhhhcCcee
Confidence            9999998876 355542 3345555443    345566799999999987553322222233456789999999985211


Q ss_pred             -----------CCCeEEEEecCCC-------------------------------------------------cccchhc
Q 007255          427 -----------AKGILVLAATNRP-------------------------------------------------HAIDAAL  446 (611)
Q Consensus       427 -----------~~~~~vI~~tn~~-------------------------------------------------~~ld~al  446 (611)
                                 ..+.++|.|+|-.                                                 ..+.|.|
T Consensus       177 ~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEf  256 (364)
T d1um8a_         177 NIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPEL  256 (364)
T ss_dssp             C---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHH
T ss_pred             ccCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhhhhHHHH
Confidence                       1234555555530                                                 0133344


Q ss_pred             cCCCCccceeecCCCCHHHHHHHHH
Q 007255          447 MRPGRFDLVLYVPPPDLEARHEILR  471 (611)
Q Consensus       447 ~r~gRf~~~i~~~~p~~~~r~~il~  471 (611)
                      +  ||++.++.|...+.++..+|+.
T Consensus       257 ~--gRi~~iv~f~~L~~~~l~~Il~  279 (364)
T d1um8a_         257 I--GRLPVLSTLDSISLEAMVDILQ  279 (364)
T ss_dssp             H--TTCCEEEECCCCCHHHHHHHHH
T ss_pred             H--HHhcchhhHhhhhHHHHHHHHH
Confidence            4  5999999999999999999997

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.49  E-value=6.8e-13  Score=129.26  Aligned_cols=221  Identities=18%  Similarity=0.141  Sum_probs=135.9

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC----CcEEEEccccccc---
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG----AHLTVISPHSVHK---   91 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~----~~~~~v~~~~~~~---   91 (611)
                      +.++|.+..++.|.+++...+..+.       ..+.++||+||||||||++++.+++.+.    ..++.+++.....   
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~-------~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~   88 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTA   88 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTT-------SSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCC-------CCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhh
Confidence            5689999999999998865433322       3568999999999999999999999984    4456665543211   


Q ss_pred             -------------ccccchHHH-HHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCC
Q 007255           92 -------------AHVGESEKA-LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK  157 (611)
Q Consensus        92 -------------~~~~~~~~~-l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  157 (611)
                                   ...+..... ...+.....   ......++++|++|.+...          ....+...+...... 
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~d~~~~~----------~~~~~~~~~~~~~~~-  154 (276)
T d1fnna2          89 IIGEIARSLNIPFPRRGLSRDEFLALLVEHLR---ERDLYMFLVLDDAFNLAPD----------ILSTFIRLGQEADKL-  154 (276)
T ss_dssp             HHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHH---HTTCCEEEEEETGGGSCHH----------HHHHHHHHTTCHHHH-
T ss_pred             hhhhhHHhhhhhhhhhccchhHHHHHHHHHHh---hcccccccchhHHHHhhhh----------hhhhHHHHHhccccc-
Confidence                         111111122 222222222   1234668889999876431          122222222211100 


Q ss_pred             CCCCcEEEEEeecCc---ccccHHhhccCCcc-eEEEccCCCHHHHHHHHHHhhcCCCC---CCcccHHHHHHhccCC--
Q 007255          158 TSVPHVVVVASTNRV---DAIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKVPL---DANVDLEAIATSCNGY--  228 (611)
Q Consensus       158 ~~~~~v~ii~ttn~~---~~l~~~l~~~~Rf~-~~i~~~~p~~~~r~~Il~~~~~~~~~---~~~~~~~~la~~~~g~--  228 (611)
                       ....+.+|++++..   +.+++++.+  |+. ..+.|++|+.+++.+|++.++.....   -.+..++.++..+...  
T Consensus       155 -~~~~~~~i~~~~~~~~~~~~~~~~~~--r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~  231 (276)
T d1fnna2         155 -GAFRIALVIVGHNDAVLNNLDPSTRG--IMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTP  231 (276)
T ss_dssp             -SSCCEEEEEEESSTHHHHTSCHHHHH--HHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSST
T ss_pred             -cccceEEeecCCchhhhhhcchhhhh--hhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhh
Confidence             12246778888774   467788877  543 46899999999999999987654221   2233466666654321  


Q ss_pred             ------ccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHhc
Q 007255          229 ------VGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (611)
Q Consensus       229 ------~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~~  271 (611)
                            +.+.+.++++.|...+.....        ..++.+|+.+|...
T Consensus       232 ~~~~~G~~R~a~~ll~~a~~~A~~~~~--------~~I~~edv~~A~~~  272 (276)
T d1fnna2         232 LDTNRGDARLAIDILYRSAYAAQQNGR--------KHIAPEDVRKSSKE  272 (276)
T ss_dssp             TCTTSCCHHHHHHHHHHHHHHHHHTTC--------SSCCHHHHHHHHHH
T ss_pred             hhhcCCCHHHHHHHHHHHHHHHHHcCC--------CCcCHHHHHHHHHH
Confidence                  335566778888766655432        25788888887654

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.48  E-value=2.4e-13  Score=135.02  Aligned_cols=171  Identities=22%  Similarity=0.294  Sum_probs=119.0

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccccc-----
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH-----   93 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~-----   93 (611)
                      ..++||+++++.|.+++......-.    -.-++...+||+||||||||.+|+.+|+.++.+++.++++.+....     
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~----~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~~l   97 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLG----HEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRL   97 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCS----CTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSS
T ss_pred             CeecChHHHHHHHHHHHHHHHccCC----CCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhhh
Confidence            4579999999999998754321100    0112334799999999999999999999999999999998775321     


Q ss_pred             ----ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCcEE
Q 007255           94 ----VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVV  164 (611)
Q Consensus        94 ----~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~~~~~v~  164 (611)
                          .|.........+....   .....+|+++||+|.+.+          .+++.++..++...-+     .....+.+
T Consensus        98 ~g~~~gy~g~~~~~~l~~~~---~~~~~~vvl~DeieKa~~----------~V~~~lLqild~G~ltd~~Gr~vdf~n~i  164 (315)
T d1r6bx3          98 IGAPPGYVGFDQGGLLTDAV---IKHPHAVLLLDEIEKAHP----------DVFNILLQVMDNGTLTDNNGRKADFRNVV  164 (315)
T ss_dssp             CCCCSCSHHHHHTTHHHHHH---HHCSSEEEEEETGGGSCH----------HHHHHHHHHHHHSEEEETTTEEEECTTEE
T ss_pred             cccCCCccccccCChhhHHH---HhCccchhhhcccccccc----------hHhhhhHHhhccceecCCCCCccCccceE
Confidence                1211111111111111   123468999999998754          6788999999864321     12234688


Q ss_pred             EEEeecCc-------------------------ccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhc
Q 007255          165 VVASTNRV-------------------------DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK  208 (611)
Q Consensus       165 ii~ttn~~-------------------------~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~  208 (611)
                      +|+|+|--                         ..+.|.+..  |++..+.|.+.+.++..+|+..++.
T Consensus       165 iI~Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~ii~f~~l~~~~~~~I~~~~l~  231 (315)
T d1r6bx3         165 LVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIV  231 (315)
T ss_dssp             EEEEECSSCC-----------------CHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             EEeccchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHh--hhhhhhcccchhhhHHHHHHHHHHH
Confidence            99999842                         136788877  9999999999999999999876553

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=99.48  E-value=3.7e-13  Score=131.99  Aligned_cols=232  Identities=15%  Similarity=0.105  Sum_probs=136.7

Q ss_pred             ccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC---------CcEEEEcccc
Q 007255           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---------AHLTVISPHS   88 (611)
Q Consensus        18 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~---------~~~~~v~~~~   88 (611)
                      .+.+.|.+..++.|.+++..++..+..    ....+..++|+||||||||++++++++.+.         ..+..+++..
T Consensus        15 P~~~~~Re~e~~~l~~~l~~~~~~~~~----~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~   90 (287)
T d1w5sa2          15 PPELRVRRGEAEALARIYLNRLLSGAG----LSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFN   90 (287)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSC----BCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGG
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHcCCC----CCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeecccc
Confidence            367899999999999987655443210    001123467789999999999999999873         2344444433


Q ss_pred             ccc----------------ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhc
Q 007255           89 VHK----------------AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS  152 (611)
Q Consensus        89 ~~~----------------~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~  152 (611)
                      ...                ...+.....+...+.....  ....+.++++||+|.+....+..    ......+..+++.
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~iide~d~l~~~~~~~----~~~~~~l~~l~~~  164 (287)
T d1w5sa2          91 APNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLY--VENHYLLVILDEFQSMLSSPRIA----AEDLYTLLRVHEE  164 (287)
T ss_dssp             CCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHH--HHTCEEEEEEESTHHHHSCTTSC----HHHHHHHHTHHHH
T ss_pred             ccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHH--hccCccccceeEEEEeccccccc----hhHHHHHHHHHHh
Confidence            211                1112222222222222221  12346788999999987654332    2334444444443


Q ss_pred             CCCCCCCCCcEEEEEeecCcc------cccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCC---CcccHHHHHH
Q 007255          153 NKPSKTSVPHVVVVASTNRVD------AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD---ANVDLEAIAT  223 (611)
Q Consensus       153 ~~~~~~~~~~v~ii~ttn~~~------~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~---~~~~~~~la~  223 (611)
                      ..... ....+.+|+.++.++      ..++++.+  ||...++|++|+.+++.+|++.+++.....   .+..++.+++
T Consensus       165 l~~~~-~~~~~~~i~i~~~~~~~~~~~~~~~~~~~--r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~  241 (287)
T d1w5sa2         165 IPSRD-GVNRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISD  241 (287)
T ss_dssp             SCCTT-SCCBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHH
T ss_pred             cchhh-cccceeEEeecccHHHHHHHHhhccchhc--ccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHH
Confidence            32211 222456666665543      23467766  888899999999999999999877542221   2233777777


Q ss_pred             hccCC-----ccccHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHh
Q 007255          224 SCNGY-----VGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARS  270 (611)
Q Consensus       224 ~~~g~-----~~~dl~~l~~~a~~~a~~r~~~~~~~~~~~~v~~ed~~~a~~  270 (611)
                      .+..+     ..+....+++.|...+.....        ..++.+++.+|..
T Consensus       242 ~~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~--------~~It~~~V~~A~~  285 (287)
T d1w5sa2         242 VYGEDKGGDGSARRAIVALKMACEMAEAMGR--------DSLSEDLVRKAVS  285 (287)
T ss_dssp             HHCGGGTSCCCHHHHHHHHHHHHHHHHHTTC--------SSCCHHHHHHHHH
T ss_pred             HHhccccCCCCHHHHHHHHHHHHHHHHHcCC--------CCCCHHHHHHHHh
Confidence            66433     234455677777766654322        2477777777653

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=99.47  E-value=2.3e-13  Score=137.11  Aligned_cols=213  Identities=22%  Similarity=0.278  Sum_probs=130.6

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC-------C-------
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE-------A-------  350 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~-------~-------  350 (611)
                      |...|.+|+|++.+|+.|.-.+..             ...+|+||+||||||||++|+++|..+.       +       
T Consensus         2 ~~~~f~~I~Gq~~~kral~laa~~-------------~~~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~   68 (333)
T d1g8pa_           2 PVFPFSAIVGQEDMKLALLLTAVD-------------PGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNV   68 (333)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHHC-------------GGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSG
T ss_pred             CCCChhhccCcHHHHHHHHHHHhc-------------cCCCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCcc
Confidence            456799999999999987765542             1235899999999999999999998761       1       


Q ss_pred             -------------------cEEeecchhhccccccchHHHHHHHHH---------HHHhcCCcEEEEcccccccccCCCC
Q 007255          351 -------------------SFFSLSGAELYSMYVGESEALLRNTFQ---------RARLAAPSIIFFDEADVVGAKRGGS  402 (611)
Q Consensus       351 -------------------~~~~~~~~~~~~~~~g~~~~~~~~~~~---------~a~~~~p~il~iDeid~l~~~~~~~  402 (611)
                                         +++......-.+...|...  +...+.         .....+..|+|+||++.+       
T Consensus        69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~d--~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~-------  139 (333)
T d1g8pa_          69 EMIPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALD--IERAISKGEKAFEPGLLARANRGYLYIDECNLL-------  139 (333)
T ss_dssp             GGSCTTCCCSCCCEEEECCCEEEECTTCCHHHHHCEEC--HHHHHHHCGGGEECCHHHHHTTEEEEETTGGGS-------
T ss_pred             ccccchhhccccCcccccCceeeccCCCCcccccCcch--hhhccccCcceeeccccccccccEeecccHHHH-------
Confidence                               1111111000000011000  000000         011123459999999876       


Q ss_pred             CCCCcchhHHHHHHHHHHhcCCC-----------CCCCeEEEEecCCCc-ccchhccCCCCccceeecCCC-CHHHHHHH
Q 007255          403 SSTSITVGERLLSTLLTEMDGLE-----------QAKGILVLAATNRPH-AIDAALMRPGRFDLVLYVPPP-DLEARHEI  469 (611)
Q Consensus       403 ~~~~~~~~~~~~~~ll~~l~~~~-----------~~~~~~vI~~tn~~~-~ld~al~r~gRf~~~i~~~~p-~~~~r~~i  469 (611)
                             ....++.|+..|+.-.           -+.++++|+|+|..+ .+.++++.  ||+..+.++.| +.+.+..+
T Consensus       140 -------~~~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~~~~l~~~llD--Rf~~~i~v~~~~~~~~~~~~  210 (333)
T d1g8pa_         140 -------EDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVETRVEV  210 (333)
T ss_dssp             -------CHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHHHHHHH
T ss_pred             -------HHHHHHHHhhhhcCCeEEecccCceecCCCCEEEEEecCccccccccchhh--hhcceeeccCcchhhHHHHH
Confidence                   3678899999997321           124688898888644 68999999  99999999876 45556555


Q ss_pred             HHHH-------------------------------hcCCCCCCc--ccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhhc
Q 007255          470 LRVH-------------------------------TRNMKVGDD--VDLRSIAEETELFTGAELEGLCREAGIVALREDI  516 (611)
Q Consensus       470 l~~~-------------------------------~~~~~~~~~--~~~~~la~~~~g~s~~~i~~~~~~a~~~a~~~~~  516 (611)
                      ....                               +.+.....+  ..+..........|.+....+++-|...|..+. 
T Consensus       211 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~S~R~~~~llrvArtiA~L~g-  289 (333)
T d1g8pa_         211 IRRRDTYDADPKAFLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARALAALEG-  289 (333)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTT-
T ss_pred             HHhhhhcccChHHHHHHHHHHHHHHHHHHHHHhhcccceecCHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHHcC-
Confidence            4321                               111111111  112233333444578888888888877776553 


Q ss_pred             ccccccHHHHHHHH
Q 007255          517 SATAVRNRHFQTVK  530 (611)
Q Consensus       517 ~~~~i~~~~~~~~l  530 (611)
                       ...++.+|+..++
T Consensus       290 -r~~V~~~di~~a~  302 (333)
T d1g8pa_         290 -ATAVGRDHLKRVA  302 (333)
T ss_dssp             -CSBCCHHHHHHHH
T ss_pred             -CCCCCHHHHHHHH
Confidence             5568888888754

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.46  E-value=4e-13  Score=125.57  Aligned_cols=189  Identities=23%  Similarity=0.330  Sum_probs=120.2

Q ss_pred             cccc-cCC--cHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccc
Q 007255           17 AEEA-IGG--NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVH   90 (611)
Q Consensus        17 ~~~~-i~G--~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~   90 (611)
                      +|++ ++|  ++.+.+.+.+++..+          | ...++++|+||+|||||+|++++++++   +..++++++.++.
T Consensus         8 tFdnF~vg~~N~~a~~~~~~~~~~~----------~-~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~   76 (213)
T d1l8qa2           8 TLENFIVGEGNRLAYEVVKEALENL----------G-SLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFA   76 (213)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTT----------T-TSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHH
T ss_pred             ChhhccCCCcHHHHHHHHHHHHhCc----------C-CCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHH
Confidence            4455 344  677777777766442          1 123569999999999999999999887   4567777766654


Q ss_pred             cccccchHH-HHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEee
Q 007255           91 KAHVGESEK-ALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (611)
Q Consensus        91 ~~~~~~~~~-~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~tt  169 (611)
                      ......... ....+++...      ...+|+|||+|.+....        .++..++.+++......    ..+++++.
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~------~~dll~iDDi~~i~~~~--------~~~~~lf~lin~~~~~~----~~iiits~  138 (213)
T d1l8qa2          77 QAMVEHLKKGTINEFRNMYK------SVDLLLLDDVQFLSGKE--------RTQIEFFHIFNTLYLLE----KQIILASD  138 (213)
T ss_dssp             HHHHHHHHHTCHHHHHHHHH------TCSEEEEECGGGGTTCH--------HHHHHHHHHHHHHHHTT----CEEEEEES
T ss_pred             HHHHHHHHccchhhHHHHHh------hccchhhhhhhhhcCch--------HHHHHHHHHHHHHhhcc----ceEEEecC
Confidence            332211111 1112222221      24599999999986532        44555666665433222    34666666


Q ss_pred             cCcccc---cHHhhccCCc--ceEEEccCCCHHHHHHHHHHhhcCCCCCCc-ccHHHHHHhccCCccccHHHHHHH
Q 007255          170 NRVDAI---DPALRRSGRF--DAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCRE  239 (611)
Q Consensus       170 n~~~~l---~~~l~~~~Rf--~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~-~~~~~la~~~~g~~~~dl~~l~~~  239 (611)
                      .+|..+   .+++.+  |+  ...+.++ |+.+++.++++.++...++.-+ ..++.++..+.  +.|++..+++.
T Consensus       139 ~~p~~l~~~~~dL~S--RL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~~~v~~yl~~~~~--~~R~L~~~l~~  209 (213)
T d1l8qa2         139 RHPQKLDGVSDRLVS--RFEGGILVEIE-LDNKTRFKIIKEKLKEFNLELRKEVIDYLLENTK--NVREIEGKIKL  209 (213)
T ss_dssp             SCGGGCTTSCHHHHH--HHHTSEEEECC-CCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHCS--SHHHHHHHHHH
T ss_pred             CcchhccccchHHHH--HhhCceEEEEC-CCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcC--cHHHHHHHHHH
Confidence            667644   588888  55  4677886 6778999999998877666533 34788887753  45777666654

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=99.45  E-value=3.2e-13  Score=133.88  Aligned_cols=208  Identities=17%  Similarity=0.232  Sum_probs=135.9

Q ss_pred             cccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccccccc-
Q 007255           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV-   94 (611)
Q Consensus        19 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~~-   94 (611)
                      ..|+||+++++.+...+........    ...++...+||+||+|||||.+|+.+|+.+   +.+++.++++++..... 
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~----~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~~   98 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLK----DPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAV   98 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCS----CSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGG
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCC----CCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchhh
Confidence            3579999999999888754321100    011233478999999999999999999998   67899999887654211 


Q ss_pred             ----cchHH----HHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCC
Q 007255           95 ----GESEK----ALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVP  161 (611)
Q Consensus        95 ----~~~~~----~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~~~~  161 (611)
                          |....    .-...+.....   ....+|+++||+|.+.+          .++..|+.+++....+     .....
T Consensus        99 ~~L~g~~~gyvG~~~~~~l~~~~~---~~p~~Vvl~DEieK~~~----------~v~~~ll~~l~~g~~~~~~gr~v~~~  165 (315)
T d1qvra3          99 SRLIGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDEIEKAHP----------DVFNILLQILDDGRLTDSHGRTVDFR  165 (315)
T ss_dssp             GGC--------------CHHHHHH---HCSSEEEEESSGGGSCH----------HHHHHHHHHHTTTEECCSSSCCEECT
T ss_pred             hhhcCCCCCCcCcccCChHHHHHH---hCCCcEEEEehHhhcCH----------HHHHHHHHHhccCceeCCCCcEecCc
Confidence                11111    00111222111   22368999999998755          6788999998874222     22346


Q ss_pred             cEEEEEeecCc--------------------------ccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCC-----
Q 007255          162 HVVVVASTNRV--------------------------DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV-----  210 (611)
Q Consensus       162 ~v~ii~ttn~~--------------------------~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~-----  210 (611)
                      ++++|+|||--                          +.+.|++..  ||+..+.|.+.+.++..+|+...+...     
T Consensus       166 ~~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~Ii~F~~L~~~~~~~I~~~~l~~l~~rl~  243 (315)
T d1qvra3         166 NTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQLSYLRARLA  243 (315)
T ss_dssp             TEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             ceEEEEecccChHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHh--cCCeeeeccchhhhhhHHHHHHHHHHHHHHHH
Confidence            78999999952                          347888988  999999999999999999987554321     


Q ss_pred             --CCCC---cccHHHHHHhc--cCCccccHHHHHHHHHHHHh
Q 007255          211 --PLDA---NVDLEAIATSC--NGYVGADLEALCREATMSAV  245 (611)
Q Consensus       211 --~~~~---~~~~~~la~~~--~g~~~~dl~~l~~~a~~~a~  245 (611)
                        ....   +...+.+++.+  ..+-+|.+...++......+
T Consensus       244 ~~~i~l~i~~~~~~~L~~~~y~~~~GAR~L~r~Ie~~i~~~L  285 (315)
T d1qvra3         244 EKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPL  285 (315)
T ss_dssp             TTTCEEEECHHHHHHHHHHHCBTTTBTSTHHHHHHHHTHHHH
T ss_pred             hccccccccHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHH
Confidence              1111   11256666652  34556788777776554443

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=99.34  E-value=1.3e-12  Score=131.47  Aligned_cols=163  Identities=28%  Similarity=0.347  Sum_probs=103.2

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccc--------
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS--------   88 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~--------   88 (611)
                      +|.+|+|++.+|..|.-+...+             ...|+||+||||||||++++.++..|.. +..+....        
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~-------------~~h~vLl~G~pG~GKT~lar~~~~iLp~-~~~~~~~~~~~~~~~~   70 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDP-------------GIGGVLVFGDRGTGKSTAVRALAALLPE-IEAVEGCPVSSPNVEM   70 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCG-------------GGCCEEEECCGGGCTTHHHHHHHHHSCC-EEEETTCTTCCSSGGG
T ss_pred             ChhhccCcHHHHHHHHHHHhcc-------------CCCeEEEECCCCccHHHHHHHHHHhCCC-chhhccCccccCcccc
Confidence            6899999999999776544321             1248999999999999999999987632 11111000        


Q ss_pred             ------------------cccccccchHHHH------HHHHHHHHhhh-----hcCCCeEEEEccccccCCCCCCCchhh
Q 007255           89 ------------------VHKAHVGESEKAL------REAFSQASSHA-----LSGKPSVVFIDEIDALCPRRDHRREQD  139 (611)
Q Consensus        89 ------------------~~~~~~~~~~~~l------~~~f~~~~~~~-----~~~~~~il~IDeid~l~~~~~~~~~~~  139 (611)
                                        +.....+.+...+      ...+.......     .....+|+||||++.+.+         
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~~~---------  141 (333)
T d1g8pa_          71 IPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLED---------  141 (333)
T ss_dssp             SCTTCCCSCCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCH---------
T ss_pred             ccchhhccccCcccccCceeeccCCCCcccccCcchhhhccccCcceeeccccccccccEeecccHHHHHH---------
Confidence                              0000111111111      11111110000     011357999999988754         


Q ss_pred             HHHHHHHHHHHhcCCC-------CCCCCCcEEEEEeecCc-ccccHHhhccCCcceEEEccCC-CHHHHHHHHHH
Q 007255          140 VRIASQLFTLMDSNKP-------SKTSVPHVVVVASTNRV-DAIDPALRRSGRFDAEVEVTVP-TAEERFEILKL  205 (611)
Q Consensus       140 ~~~~~~ll~~l~~~~~-------~~~~~~~v~ii~ttn~~-~~l~~~l~~~~Rf~~~i~~~~p-~~~~r~~Il~~  205 (611)
                       ..++.|+..|++..-       ....+.++++++|+|+. ..+++++.+  ||+..+.++.| +...+.++...
T Consensus       142 -~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~~~~l~~~llD--Rf~~~i~v~~~~~~~~~~~~~~~  213 (333)
T d1g8pa_         142 -HIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVETRVEVIRR  213 (333)
T ss_dssp             -HHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHHHHHHHHHH
T ss_pred             -HHHHHHhhhhcCCeEEecccCceecCCCCEEEEEecCccccccccchhh--hhcceeeccCcchhhHHHHHHHh
Confidence             788999999986421       11224568999999994 479999998  99988888876 56666666554

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.33  E-value=2.4e-11  Score=125.31  Aligned_cols=76  Identities=26%  Similarity=0.359  Sum_probs=54.3

Q ss_pred             ccchhHHHHHHHHHhhccCCChhHHhhc-CCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc-ccccc
Q 007255          292 IGGLRDLKKKLQQAVEWPIKHSTAFSRL-GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVGE  367 (611)
Q Consensus       292 i~g~~~~k~~l~~~~~~~~~~~~~~~~~-~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~-~~~g~  367 (611)
                      |+||+++|+.|--++-...++...-... .--.++++||.||||||||.||+.+|..++.||+.++++.+.. .|+|.
T Consensus        16 VvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~fTeaGYvG~   93 (443)
T d1g41a_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   93 (443)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCC
T ss_pred             ccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCEEEeecceeeecceeec
Confidence            7899999999887664211110000000 1123679999999999999999999999999999999999876 36665

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.27  E-value=3.2e-12  Score=117.69  Aligned_cols=117  Identities=10%  Similarity=0.114  Sum_probs=90.8

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHhCC------cEEeecchhhccccccchHHHHHHHHHHHHhc----CCcEEEEccc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAAEA------SFFSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEA  392 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~~~------~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~----~p~il~iDei  392 (611)
                      .+.++||+||||+|||++|..+++....      .++.+.+..   +-.  .-..++.+.+.+...    ...|++|||+
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~---~~I--~Id~IR~i~~~~~~~~~~~~~KviIId~a   88 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG---ENI--GIDDIRTIKDFLNYSPELYTRKYVIVHDC   88 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS---SCB--CHHHHHHHHHHHTSCCSSSSSEEEEETTG
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCc---CCC--CHHHHHHHHHHHhhCcccCCCEEEEEeCc
Confidence            4568999999999999999999987732      366665531   111  234566666665432    2349999999


Q ss_pred             ccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccchhccCCCCccceeecCCCCH
Q 007255          393 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDAALMRPGRFDLVLYVPPPDL  463 (611)
Q Consensus       393 d~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~al~r~gRf~~~i~~~~p~~  463 (611)
                      |.+              +....++||+.|+  +++.+++||++|+.++.+.|.+++  |+. .+.|+.|..
T Consensus        89 d~l--------------~~~aqNaLLK~LE--EPp~~t~fiLit~~~~~ll~TI~S--RC~-~i~~~~p~~  140 (198)
T d2gnoa2          89 ERM--------------TQQAANAFLKALE--EPPEYAVIVLNTRRWHYLLPTIKS--RVF-RVVVNVPKE  140 (198)
T ss_dssp             GGB--------------CHHHHHHTHHHHH--SCCTTEEEEEEESCGGGSCHHHHT--TSE-EEECCCCHH
T ss_pred             ccc--------------chhhhhHHHHHHh--CCCCCceeeeccCChhhCHHHHhc--ceE-EEeCCCchH
Confidence            988              3677899999999  688899999999999999999998  986 888887754

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.27  E-value=1.4e-10  Score=119.40  Aligned_cols=72  Identities=21%  Similarity=0.284  Sum_probs=56.1

Q ss_pred             ccCCcHHHHHHHHHHHHhhhhCchHHHhcC-CCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccccc
Q 007255           20 AIGGNRAAVEALRELITFPLLYSSQAQKLG-LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (611)
Q Consensus        20 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g-~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~   91 (611)
                      -|+||+++|+.|-.++...+.+........ --.|.||||+||||||||.+|+.+|+.++.||+.++++.+..
T Consensus        15 yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~fTe   87 (443)
T d1g41a_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTE   87 (443)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC-
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCEEEeecceeee
Confidence            489999999999999876543222111111 124679999999999999999999999999999999987753

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.25  E-value=4.7e-11  Score=109.72  Aligned_cols=121  Identities=14%  Similarity=0.154  Sum_probs=93.6

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhC------CcEEEEcccccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECG------AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEI  125 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~------~~~~~v~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDei  125 (611)
                      .+.++||+||||+|||++|..+++.+.      ..++.+.+..-     .-....++++.+.+...+..++.-|++|||+
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~-----~I~Id~IR~i~~~~~~~~~~~~~KviIId~a   88 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGE-----NIGIDDIRTIKDFLNYSPELYTRKYVIVHDC   88 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSS-----CBCHHHHHHHHHHHTSCCSSSSSEEEEETTG
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcC-----CCCHHHHHHHHHHHhhCcccCCCEEEEEeCc
Confidence            467999999999999999999998773      24677765321     1124456666666665555566679999999


Q ss_pred             cccCCCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCH
Q 007255          126 DALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTA  196 (611)
Q Consensus       126 d~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~  196 (611)
                      |.|..          ..++.|+..|++      ++.++++|.+|+.++.+.|.+++  |+ ..+.++.|..
T Consensus        89 d~l~~----------~aqNaLLK~LEE------Pp~~t~fiLit~~~~~ll~TI~S--RC-~~i~~~~p~~  140 (198)
T d2gnoa2          89 ERMTQ----------QAANAFLKALEE------PPEYAVIVLNTRRWHYLLPTIKS--RV-FRVVVNVPKE  140 (198)
T ss_dssp             GGBCH----------HHHHHTHHHHHS------CCTTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCHH
T ss_pred             cccch----------hhhhHHHHHHhC------CCCCceeeeccCChhhCHHHHhc--ce-EEEeCCCchH
Confidence            99854          678999999997      44568889999999999999999  98 4788987753

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=99.02  E-value=1.6e-10  Score=112.03  Aligned_cols=68  Identities=19%  Similarity=0.277  Sum_probs=53.5

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccc
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~  363 (611)
                      +++++..+.+.+.+.+.+.....         .+...|+++|||||||||||++|+++|.+++.+++.++++++...
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~~~~~   71 (273)
T d1gvnb_           4 VNFTDKQFENRLNDNLEELIQGK---------KAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFKQQ   71 (273)
T ss_dssp             TCCCHHHHHHHHHHHHHHHHTTC---------CCCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHHHTT
T ss_pred             cccChHHHHHHHHHHHHHHHhcc---------cCCCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEecHHHHHH
Confidence            45666666666666666665531         144567899999999999999999999999999999999888654

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.87  E-value=4.9e-08  Score=94.12  Aligned_cols=188  Identities=18%  Similarity=0.191  Sum_probs=113.4

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~~~~~   96 (611)
                      .-++++|.++.++.|.+.                 ..++++|+||+|+|||++++.+++.++..+..+++..........
T Consensus        10 ~~~~f~GR~~el~~l~~~-----------------~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~~~~~~~~~~   72 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL-----------------RAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYIS   72 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT-----------------CSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCCC
T ss_pred             ChhhCCChHHHHHHHHhc-----------------cCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEecccccccccc
Confidence            347899999998887542                 236899999999999999999999999888777654432221110


Q ss_pred             hHH----------------------------------------------HHHHHHHHHHhhhhcCCCeEEEEccccccCC
Q 007255           97 SEK----------------------------------------------ALREAFSQASSHALSGKPSVVFIDEIDALCP  130 (611)
Q Consensus        97 ~~~----------------------------------------------~l~~~f~~~~~~~~~~~~~il~IDeid~l~~  130 (611)
                      ...                                              .+..+++....  ...++.++++||++.+..
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~~~~i~id~~~~~~~  150 (283)
T d2fnaa2          73 YKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQ--ASKDNVIIVLDEAQELVK  150 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHH--TCSSCEEEEEETGGGGGG
T ss_pred             HHHHHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHh--hcccccccccchhhhhcc
Confidence            000                                              01122222211  235678999999998765


Q ss_pred             CCCCCchhhHHHHHHHHHHHhcCCCCCCCCCcEEEEEeecCcccccHHh-------hccCCcceEEEccCCCHHHHHHHH
Q 007255          131 RRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPAL-------RRSGRFDAEVEVTVPTAEERFEIL  203 (611)
Q Consensus       131 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l-------~~~~Rf~~~i~~~~p~~~~r~~Il  203 (611)
                      ....      .+...+....+...       .+..+.+......+...+       ...+|+...+.+++.+.++..+++
T Consensus       151 ~~~~------~~~~~l~~~~~~~~-------~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l  217 (283)
T d2fnaa2         151 LRGV------NLLPALAYAYDNLK-------RIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFL  217 (283)
T ss_dssp             CTTC------CCHHHHHHHHHHCT-------TEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHH
T ss_pred             cchH------HHHHHHHHHHHhhh-------hhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHH
Confidence            4321      22334444443321       234444333321111010       012355578999999999999999


Q ss_pred             HHhhcCCCCCCcccHHHHHHhccCCccccHHHHHH
Q 007255          204 KLYTKKVPLDANVDLEAIATSCNGYVGADLEALCR  238 (611)
Q Consensus       204 ~~~~~~~~~~~~~~~~~la~~~~g~~~~dl~~l~~  238 (611)
                      +..+.....+.+ +++.+.+.+.|... -+..++.
T Consensus       218 ~~~~~~~~~~~~-~~~~i~~~~~G~P~-~L~~~~~  250 (283)
T d2fnaa2         218 RRGFQEADIDFK-DYEVVYEKIGGIPG-WLTYFGF  250 (283)
T ss_dssp             HHHHHHHTCCCC-CHHHHHHHHCSCHH-HHHHHHH
T ss_pred             HhhhhhcCCCHH-HHHHHHHHhCCCHH-HHHHHHH
Confidence            887766555443 47788888888743 4444433

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.83  E-value=4.7e-09  Score=99.68  Aligned_cols=194  Identities=19%  Similarity=0.231  Sum_probs=108.5

Q ss_pred             cCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEcccccccccc---
Q 007255           21 IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVISPHSVHKAHV---   94 (611)
Q Consensus        21 i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~---~~~~~v~~~~~~~~~~---   94 (611)
                      .||.....+++.+.+...           ...+.+|+|+|++|||||++|+++.....   .+++.+++..+.....   
T Consensus         2 ~v~~S~~~~~~~~~~~~~-----------a~~~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~~   70 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKI-----------SCAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAE   70 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHH-----------TTCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHH
T ss_pred             eEecCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHHH
Confidence            578888888887766542           12457899999999999999999987653   4678888765532210   


Q ss_pred             --cch-------HHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHHHHHHHhcCCC-----CCCCC
Q 007255           95 --GES-------EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----SKTSV  160 (611)
Q Consensus        95 --~~~-------~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~-----~~~~~  160 (611)
                        |..       ......+|+.+       +++.|||||+|.|..          ..+..|+..++....     .....
T Consensus        71 lfg~~~~~~~~~~~~~~g~l~~a-------~gGtL~l~~i~~L~~----------~~Q~~L~~~l~~~~~~~~~~~~~~~  133 (247)
T d1ny5a2          71 LFGYEKGAFTGAVSSKEGFFELA-------DGGTLFLDEIGELSL----------EAQAKLLRVIESGKFYRLGGRKEIE  133 (247)
T ss_dssp             HHCBCTTSSTTCCSCBCCHHHHT-------TTSEEEEESGGGCCH----------HHHHHHHHHHHHSEECCBTCCSBEE
T ss_pred             hcCcccCCcCCcccccCCHHHcc-------CCCEEEEeChHhCCH----------HHHHHHHHHHHhCCEEECCCCCcee
Confidence              000       00001122222       367999999998854          567778888864321     11112


Q ss_pred             CcEEEEEeecCc-c------cccHHhhccCCcc-eEEEccCCC--HHHHHHHHHHhhcC----CCCCC-cccHHHHHHh-
Q 007255          161 PHVVVVASTNRV-D------AIDPALRRSGRFD-AEVEVTVPT--AEERFEILKLYTKK----VPLDA-NVDLEAIATS-  224 (611)
Q Consensus       161 ~~v~ii~ttn~~-~------~l~~~l~~~~Rf~-~~i~~~~p~--~~~r~~Il~~~~~~----~~~~~-~~~~~~la~~-  224 (611)
                      .++.+|++|+.+ .      .+++.|..  |+. ..+.+|+..  .++...|++.++..    ..... ...-..+... 
T Consensus       134 ~~~RlI~~s~~~l~~l~~~~~f~~~L~~--~l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~ls~~al~~L~  211 (247)
T d1ny5a2         134 VNVRILAATNRNIKELVKEGKFREDLYY--RLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLL  211 (247)
T ss_dssp             CCCEEEEEESSCHHHHHHTTSSCHHHHH--HHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHH
T ss_pred             cCeEEEEecCCCHHHHHHcCCCcHHHHh--hcCeeeecCCChhhchhhHhhhhhhhhhhhhhhcCCCCCCCCHHHHHHHH
Confidence            245677777653 1      34445544  433 346666652  34555566665543    22211 1121222111 


Q ss_pred             ccCCcc--ccHHHHHHHHHHHH
Q 007255          225 CNGYVG--ADLEALCREATMSA  244 (611)
Q Consensus       225 ~~g~~~--~dl~~l~~~a~~~a  244 (611)
                      ...|.|  ++|+++++.++..+
T Consensus       212 ~~~WPGNl~EL~~~l~~a~~~~  233 (247)
T d1ny5a2         212 SYPWYGNVRELKNVIERAVLFS  233 (247)
T ss_dssp             HSCCTTHHHHHHHHHHHHHHHC
T ss_pred             hCCCCCHHHHHHHHHHHHHHhC
Confidence            122344  57777777776443

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.79  E-value=2e-08  Score=95.25  Aligned_cols=179  Identities=17%  Similarity=0.187  Sum_probs=95.9

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcccc-----cc----ch---HHHHHHHHHHHHhcCCcEEEE
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMY-----VG----ES---EALLRNTFQRARLAAPSIIFF  389 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~~-----~g----~~---~~~~~~~~~~a~~~~p~il~i  389 (611)
                      ..+|++||+|||||++|+++....   ..+++.+++..+....     .|    ..   ...-..+|..   .....|||
T Consensus        24 ~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~l~~---a~gGtL~l  100 (247)
T d1ny5a2          24 CPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGAVSSKEGFFEL---ADGGTLFL  100 (247)
T ss_dssp             SCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCTTSSTTCCSCBCCHHHH---TTTSEEEE
T ss_pred             CCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHHHhcCcccCCcCCcccccCCHHHc---cCCCEEEE
Confidence            459999999999999999999776   4567777776543210     00    00   0000112222   23459999


Q ss_pred             cccccccccCCCCCCCCcchhHHHHHHHHHHhcCCC---------CCCCeEEEEecCCCc-------ccchhccCCCCcc
Q 007255          390 DEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE---------QAKGILVLAATNRPH-------AIDAALMRPGRFD  453 (611)
Q Consensus       390 Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~~~vI~~tn~~~-------~ld~al~r~gRf~  453 (611)
                      ||||.+-              ......|+..++.-.         ...++.+|++|+.+-       .+++.|+.  |+.
T Consensus       101 ~~i~~L~--------------~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI~~s~~~l~~l~~~~~f~~~L~~--~l~  164 (247)
T d1ny5a2         101 DEIGELS--------------LEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGKFREDLYY--RLG  164 (247)
T ss_dssp             ESGGGCC--------------HHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTSSCHHHHH--HHT
T ss_pred             eChHhCC--------------HHHHHHHHHHHHhCCEEECCCCCceecCeEEEEecCCCHHHHHHcCCCcHHHHh--hcC
Confidence            9999882              344566666664211         112466788887642       13333333  333


Q ss_pred             -ceeecCCCC--HHHHHHHHHHHhcC----CCCC----CcccHHHHHHhCC-CCCHHHHHHHHHHHHHHHHHhhcccccc
Q 007255          454 -LVLYVPPPD--LEARHEILRVHTRN----MKVG----DDVDLRSIAEETE-LFTGAELEGLCREAGIVALREDISATAV  521 (611)
Q Consensus       454 -~~i~~~~p~--~~~r~~il~~~~~~----~~~~----~~~~~~~la~~~~-g~s~~~i~~~~~~a~~~a~~~~~~~~~i  521 (611)
                       ..|.+|+..  .++...|++.+++.    ....    ++..+..|..... | +-++++++++.|...+     ....|
T Consensus       165 ~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~ls~~al~~L~~~~WPG-Nl~EL~~~l~~a~~~~-----~~~~I  238 (247)
T d1ny5a2         165 VIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYG-NVRELKNVIERAVLFS-----EGKFI  238 (247)
T ss_dssp             TEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTT-HHHHHHHHHHHHHHHC-----CSSEE
T ss_pred             eeeecCCChhhchhhHhhhhhhhhhhhhhhcCCCCCCCCHHHHHHHHhCCCCC-HHHHHHHHHHHHHHhC-----CCCeE
Confidence             245555442  23444444544322    2222    2233445544432 2 3368888888776544     23447


Q ss_pred             cHHHHHH
Q 007255          522 RNRHFQT  528 (611)
Q Consensus       522 ~~~~~~~  528 (611)
                      +.+|+..
T Consensus       239 ~~~dl~~  245 (247)
T d1ny5a2         239 DRGELSC  245 (247)
T ss_dssp             CHHHHHH
T ss_pred             CHHHccc
Confidence            7766643

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.75  E-value=9.6e-08  Score=91.97  Aligned_cols=191  Identities=18%  Similarity=0.078  Sum_probs=114.7

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcccc
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~  364 (611)
                      |...-++++|.+...+++.+.                 ..+.++++||+|+|||++++.++...+..+..++........
T Consensus         7 p~~~~~~f~GR~~el~~l~~~-----------------~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~~~~~~~   69 (283)
T d2fnaa2           7 PKDNRKDFFDREKEIEKLKGL-----------------RAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERN   69 (283)
T ss_dssp             CCCSGGGSCCCHHHHHHHHHT-----------------CSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCS
T ss_pred             CCCChhhCCChHHHHHHHHhc-----------------cCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEeccccccc
Confidence            445568899998877776542                 125689999999999999999999998888777654332211


Q ss_pred             ccchH----------------------------------------------HHHHHHHHHHHh--cCCcEEEEccccccc
Q 007255          365 VGESE----------------------------------------------ALLRNTFQRARL--AAPSIIFFDEADVVG  396 (611)
Q Consensus       365 ~g~~~----------------------------------------------~~~~~~~~~a~~--~~p~il~iDeid~l~  396 (611)
                      .....                                              ..+..+++....  ..+.++++||++.+.
T Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~  149 (283)
T d2fnaa2          70 YISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELV  149 (283)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGG
T ss_pred             cccHHHHHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhc
Confidence            10000                                              012223333222  346689999999885


Q ss_pred             ccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc---cchhcc----CCCCccceeecCCCCHHHHHHH
Q 007255          397 AKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA---IDAALM----RPGRFDLVLYVPPPDLEARHEI  469 (611)
Q Consensus       397 ~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~---ld~al~----r~gRf~~~i~~~~p~~~~r~~i  469 (611)
                      ....          ..+...+...++   ...++..+.++.....   +.....    -.+|+...+.+++.+.++..++
T Consensus       150 ~~~~----------~~~~~~l~~~~~---~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~  216 (283)
T d2fnaa2         150 KLRG----------VNLLPALAYAYD---NLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEF  216 (283)
T ss_dssp             GCTT----------CCCHHHHHHHHH---HCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHH
T ss_pred             ccch----------HHHHHHHHHHHH---hhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHH
Confidence            3311          112233322222   2334444444433221   111100    1136667899999999999999


Q ss_pred             HHHHhcCCCCCCcccHHHHHHhCCCCCHHHHHHHHHHH
Q 007255          470 LRVHTRNMKVGDDVDLRSIAEETELFTGAELEGLCREA  507 (611)
Q Consensus       470 l~~~~~~~~~~~~~~~~~la~~~~g~s~~~i~~~~~~a  507 (611)
                      ++..+....+.. .+++.+.+.+.|. +..+..++..+
T Consensus       217 l~~~~~~~~~~~-~~~~~i~~~~~G~-P~~L~~~~~~~  252 (283)
T d2fnaa2         217 LRRGFQEADIDF-KDYEVVYEKIGGI-PGWLTYFGFIY  252 (283)
T ss_dssp             HHHHHHHHTCCC-CCHHHHHHHHCSC-HHHHHHHHHHH
T ss_pred             HHhhhhhcCCCH-HHHHHHHHHhCCC-HHHHHHHHHHH
Confidence            987766555433 3577888889885 66676665533

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=98.48  E-value=3.4e-08  Score=95.19  Aligned_cols=44  Identities=34%  Similarity=0.564  Sum_probs=39.4

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccccc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA   92 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~~~   92 (611)
                      +...|.++||+||||||||++|+++|++++.+++.++++++...
T Consensus        28 ~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~~~~~   71 (273)
T d1gvnb_          28 AVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFKQQ   71 (273)
T ss_dssp             CCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHHHTT
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEecHHHHHH
Confidence            45678999999999999999999999999999999998876543

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.19  E-value=3.6e-06  Score=74.86  Aligned_cols=24  Identities=33%  Similarity=0.515  Sum_probs=21.9

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCC
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEA  350 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~  350 (611)
                      +++.||||||||+|+++++..+..
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCC
Confidence            789999999999999999998843

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.13  E-value=1.2e-05  Score=71.38  Aligned_cols=26  Identities=38%  Similarity=0.792  Sum_probs=23.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCc
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAH   80 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~   80 (611)
                      .|+|.||||+||||+++.++..+...
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCCC
Confidence            58999999999999999999988543

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=98.03  E-value=7.2e-05  Score=71.43  Aligned_cols=172  Identities=13%  Similarity=0.141  Sum_probs=93.2

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhC----Cc---EEEEccccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG----AH---LTVISPHSV   89 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~----~~---~~~v~~~~~   89 (611)
                      .-.++.|.+..+++|.+.+...          +-.....+.|+|..|+|||++|+.+++...    ..   .+-++.+..
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~----------~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~   87 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEM----------CDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGT   87 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHH----------TTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCC
T ss_pred             CCCceeCcHHHHHHHHHHHHhc----------cCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCC
Confidence            3456889999999999887431          112235788999999999999999987632    11   122222111


Q ss_pred             cc-c-----------------------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccCCCCCCCchhhHHHHHH
Q 007255           90 HK-A-----------------------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQ  145 (611)
Q Consensus        90 ~~-~-----------------------~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid~l~~~~~~~~~~~~~~~~~  145 (611)
                      .. .                       ............+.   ......+++++++||++..            .   .
T Consensus        88 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~L~~kr~LlVLDDv~~~------------~---~  149 (277)
T d2a5yb3          88 APKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMIC---NALIDRPNTLFVFDDVVQE------------E---T  149 (277)
T ss_dssp             STTHHHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHH---HHHTTSTTEEEEEEEECCH------------H---H
T ss_pred             CCHHHHHHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHH---HHHhccCCeeEecchhhHH------------h---h
Confidence            00 0                       00001111111111   1112346889999999632            1   1


Q ss_pred             HHHHHhcCCCCCCCCCcEEEEEeecCcccccHHhhccCCcceEEEccCCCHHHHHHHHHHhhcCCCCCCc--ccHHHHHH
Q 007255          146 LFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN--VDLEAIAT  223 (611)
Q Consensus       146 ll~~l~~~~~~~~~~~~v~ii~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~--~~~~~la~  223 (611)
                      + ..+...        ...+|.||...+ +-..+..  .. ..+.++..+.++-.++|..+.........  .....+++
T Consensus       150 ~-~~~~~~--------~srilvTTR~~~-v~~~~~~--~~-~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~  216 (277)
T d2a5yb3         150 I-RWAQEL--------RLRCLVTTRDVE-ISNAASQ--TC-EFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIE  216 (277)
T ss_dssp             H-HHHHHT--------TCEEEEEESBGG-GGGGCCS--CE-EEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHH
T ss_pred             h-hhhccc--------CceEEEEeehHH-HHHhcCC--CC-ceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHH
Confidence            1 112111        124566665432 2222222  22 36789999999999999876543332211  12467788


Q ss_pred             hccCCc
Q 007255          224 SCNGYV  229 (611)
Q Consensus       224 ~~~g~~  229 (611)
                      .|.|..
T Consensus       217 ~c~GlP  222 (277)
T d2a5yb3         217 LSSGNP  222 (277)
T ss_dssp             HHTTCH
T ss_pred             HhCCCH
Confidence            888764

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.89  E-value=3.5e-06  Score=73.60  Aligned_cols=30  Identities=27%  Similarity=0.551  Sum_probs=27.9

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ++|+|.|||||||||+++.+|+.++.+++.
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~~~id   32 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYD   32 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCeEe
Confidence            589999999999999999999999998764

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.87  E-value=3.1e-06  Score=73.90  Aligned_cols=32  Identities=28%  Similarity=0.553  Sum_probs=28.9

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      ++++|.|||||||||+|+++|..++++++...
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~~~id~~   34 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD   34 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEEHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            57999999999999999999999999987544

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.78  E-value=5.6e-06  Score=73.93  Aligned_cols=36  Identities=14%  Similarity=0.179  Sum_probs=31.4

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~   88 (611)
                      ++.|+|.|||||||||+|++||+.++.+++......
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~~~~i~~~~~~   42 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFNTTSAWEYGRE   42 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCEEECCTTHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCCeEeeehHH
Confidence            478999999999999999999999999887665443

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.77  E-value=7.5e-06  Score=72.10  Aligned_cols=30  Identities=33%  Similarity=0.586  Sum_probs=27.5

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ..|+|.|||||||||+++.+|+.++.+++.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~~~~i~   34 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSGLKYIN   34 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCcEEe
Confidence            478899999999999999999999998764

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.74  E-value=4.5e-06  Score=74.55  Aligned_cols=39  Identities=15%  Similarity=0.104  Sum_probs=33.5

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ++.++|.|||||||||+|++||..++.+++...+..+..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~~~~i~~~~~~~~~   45 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFNTTSAWEYGREFVF   45 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCEEECCTTHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCCeEeeehHHHhh
Confidence            356999999999999999999999999998777655544

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.69  E-value=8.6e-06  Score=71.26  Aligned_cols=32  Identities=28%  Similarity=0.405  Sum_probs=29.0

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      ++++|.|+||+|||++++++|..+|.+|+.++
T Consensus         1 k~I~liG~~GsGKsTi~k~La~~l~~~~~d~d   32 (161)
T d1viaa_           1 KNIVFIGFMGSGKSTLARALAKDLDLVFLDSD   32 (161)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhCCCEEecC
Confidence            35889999999999999999999999998754

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.68  E-value=1.2e-05  Score=70.37  Aligned_cols=31  Identities=23%  Similarity=0.433  Sum_probs=28.3

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      ++|+|+|+||+||||+++.+|+.+|.+++..
T Consensus         1 k~I~liG~~GsGKsTi~k~La~~l~~~~~d~   31 (161)
T d1viaa_           1 KNIVFIGFMGSGKSTLARALAKDLDLVFLDS   31 (161)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhCCCEEec
Confidence            3689999999999999999999999998854

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.67  E-value=9.7e-06  Score=71.61  Aligned_cols=37  Identities=27%  Similarity=0.413  Sum_probs=32.6

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~   89 (611)
                      ++-|+|.|||||||||+++.+++.++.+++.++...+
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~d~~   40 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDL   40 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCEEEecHHHH
Confidence            3578999999999999999999999999998876543

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.66  E-value=8.9e-06  Score=71.61  Aligned_cols=30  Identities=37%  Similarity=0.591  Sum_probs=27.3

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      .++|.|||||||||+|++||..++.+++..
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l~~~~i~~   35 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKSGLKYINV   35 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCcEEec
Confidence            488999999999999999999999998753

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=97.66  E-value=4.4e-05  Score=71.98  Aligned_cols=118  Identities=19%  Similarity=0.222  Sum_probs=67.3

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc----------------cccchHHHHHHHHHHHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----------------YVGESEALLRNTFQRAR  380 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~----------------~~g~~~~~~~~~~~~a~  380 (611)
                      |++..+-..|+||||+|||++|..+|...   +..+++++.+.-...                .....|..+..+-...+
T Consensus        50 Gi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l~~  129 (263)
T d1u94a1          50 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR  129 (263)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHHHHHHhCCCHHHEEEecCCCHHHHHHHHHHHHh
Confidence            45566667899999999999999887665   555666655432211                12224444444444455


Q ss_pred             hcCCcEEEEcccccccccC---CCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecC
Q 007255          381 LAAPSIIFFDEADVVGAKR---GGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATN  437 (611)
Q Consensus       381 ~~~p~il~iDeid~l~~~~---~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn  437 (611)
                      ...+++++||-+..++++.   +...........+.++.++..+.......++.+|++..
T Consensus       130 ~~~~~liViDSi~al~~~~e~~~~~~~~~~~~~a~~l~~~~~~l~~~~~~~~~~vi~~NQ  189 (263)
T d1u94a1         130 SGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQ  189 (263)
T ss_dssp             HTCCSEEEEECGGGCCCHHHHTTC------CHHHHHHHHHHHHHHHHHHHHTCEEEEEEC
T ss_pred             cCCCCEEEEECccccccchhcccccccchHHHHHHHHHHHHHHHHHhhhccCceEEEEEE
Confidence            6778899999999887531   11111122223345555555444333444566664443

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.63  E-value=1.6e-05  Score=70.10  Aligned_cols=30  Identities=23%  Similarity=0.432  Sum_probs=27.8

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ++|+|.|+||+||||+++.+|+.+|.+++.
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~~~id   32 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGYEFVD   32 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCCCEEe
Confidence            578999999999999999999999999774

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.63  E-value=1.3e-05  Score=70.83  Aligned_cols=31  Identities=26%  Similarity=0.435  Sum_probs=28.4

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      +.++|.||||+||||+|+.+|..+|++|+..
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~~~id~   33 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGYEFVDT   33 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCCCEEeh
Confidence            4688999999999999999999999999864

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.60  E-value=9.7e-06  Score=71.61  Aligned_cols=37  Identities=30%  Similarity=0.443  Sum_probs=32.5

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      +-++|.|||||||||+|+++|..++.+++.++..++.
T Consensus         5 ~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~d~~~   41 (176)
T d1zp6a1           5 NILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDLW   41 (176)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCEEEecHHHHH
Confidence            3478999999999999999999999999998876553

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.59  E-value=2.4e-05  Score=68.85  Aligned_cols=30  Identities=33%  Similarity=0.509  Sum_probs=26.4

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCc
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAH   80 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~   80 (611)
                      +++.+|+|.||||+||||+++.+++.++..
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l~~~   32 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAELDGF   32 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHSTTE
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHhCCC
Confidence            356789999999999999999999998753

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=97.56  E-value=0.00033  Score=66.58  Aligned_cols=48  Identities=15%  Similarity=0.014  Sum_probs=34.6

Q ss_pred             cccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      ++.|.+.-.+.+.+.+...          .-...+.+.+||++|+|||+||+.+.+..
T Consensus        21 ~~~gR~~~~~~i~~~L~~~----------~~~~~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          21 TCYIREYHVDRVIKKLDEM----------CDLDSFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             CSCCCHHHHHHHHHHHHHH----------TTSSSEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             ceeCcHHHHHHHHHHHHhc----------cCCCceEEEEECCCCCCHHHHHHHHHHhh
Confidence            3567777777777766420          11233457899999999999999998763

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.55  E-value=1.9e-05  Score=69.22  Aligned_cols=30  Identities=30%  Similarity=0.516  Sum_probs=26.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      .|+|.|+||+||||+++.+|+.++.+|+..
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l~~~fiD~   32 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKALGVGLLDT   32 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCeEee
Confidence            477779999999999999999999998754

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.55  E-value=2.9e-05  Score=68.36  Aligned_cols=34  Identities=21%  Similarity=0.303  Sum_probs=30.3

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~   86 (611)
                      ++-|+|+||||+||||+++++++.++.+++.++.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~~~   36 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGV   36 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCCeEEeec
Confidence            3679999999999999999999999988877664

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.53  E-value=2.1e-05  Score=68.97  Aligned_cols=30  Identities=30%  Similarity=0.492  Sum_probs=27.6

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      ++|.|+||||||++++.+|..++.+|+.++
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~fiD~D   33 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVGLLDTD   33 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            778899999999999999999999998654

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.52  E-value=3.3e-05  Score=69.55  Aligned_cols=32  Identities=28%  Similarity=0.481  Sum_probs=28.2

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      +.|.-|+|.||||+||||+++.||+.+|...+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~g~~~i   35 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDFGWVHL   35 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHHCCEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHCCceE
Confidence            46678999999999999999999999987644

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=97.51  E-value=0.00011  Score=69.32  Aligned_cols=120  Identities=18%  Similarity=0.160  Sum_probs=72.1

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc----------------cccchHHHHHHHHHHHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----------------YVGESEALLRNTFQRAR  380 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~----------------~~g~~~~~~~~~~~~a~  380 (611)
                      |++..+-..++||+|||||++|..++...   |..+++++.+.-...                .....|+.+..+-...+
T Consensus        53 Gip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~  132 (268)
T d1xp8a1          53 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVR  132 (268)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHHHHHHHHHh
Confidence            44555667899999999999999887655   666677766432221                11223444443333344


Q ss_pred             hcCCcEEEEcccccccccCCCCCC---CCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCC
Q 007255          381 LAAPSIIFFDEADVVGAKRGGSSS---TSITVGERLLSTLLTEMDGLEQAKGILVLAATNRP  439 (611)
Q Consensus       381 ~~~p~il~iDeid~l~~~~~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~  439 (611)
                      ...++++++|-+..++++......   .......++++.+++.+..+....++.+|++..-.
T Consensus       133 ~~~~~liIiDSi~al~~r~e~~~~~~~~~~~~~a~~l~~~lr~l~~~~~~~~~~vi~tNQv~  194 (268)
T d1xp8a1         133 SGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTAILSKTGTAAIFINQVR  194 (268)
T ss_dssp             TTCCSEEEEECTTTCCCSTTC--------CCHHHHHHHHHHHHHHHHHTTTCCEEEEEEEC-
T ss_pred             cCCCcEEEEecccccccHHHHcccccchhHHHHHHHHHHHHHHHHhhhhhcCCeEEEEeEEe
Confidence            456889999999999865432211   11123456666666666555556667777664433

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.50  E-value=3.3e-05  Score=67.72  Aligned_cols=34  Identities=21%  Similarity=0.209  Sum_probs=28.7

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~   85 (611)
                      .+.-++|+|||||||||+++.+++.++..++..+
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l~~~~~~~d   38 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGD   38 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHHTCEEEEGG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCeechh
Confidence            3456888999999999999999999998776543

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.50  E-value=2.6e-05  Score=70.00  Aligned_cols=31  Identities=16%  Similarity=0.274  Sum_probs=27.8

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      .|..|+|.|||||||||+++.+++.++...+
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~La~~~~~~~i   32 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELIKTKYQLAHI   32 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHCCEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHCCcEE
Confidence            4678999999999999999999999987754

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.46  E-value=2.9e-05  Score=68.17  Aligned_cols=33  Identities=27%  Similarity=0.354  Sum_probs=28.5

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      ++-++|.||||||||++|+++|..++++++..+
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l~~~~~~~d   38 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGD   38 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEEGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeechh
Confidence            455788999999999999999999998886554

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.45  E-value=3.9e-05  Score=67.23  Aligned_cols=29  Identities=17%  Similarity=0.400  Sum_probs=25.7

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      +-|+|.|||||||||+++.+++.++..++
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~~~~~~   31 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQLDNSAY   31 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSSEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCEE
Confidence            46899999999999999999999987644

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.44  E-value=3.4e-05  Score=67.92  Aligned_cols=34  Identities=12%  Similarity=0.271  Sum_probs=29.8

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecch
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~  358 (611)
                      +-++|+||||+|||++|++||..++.+++.++..
T Consensus         4 kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~~~d   37 (178)
T d1qhxa_           4 RMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVD   37 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCeEEeecc
Confidence            4588999999999999999999999988876643

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.43  E-value=5.6e-05  Score=67.74  Aligned_cols=31  Identities=23%  Similarity=0.376  Sum_probs=26.8

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ...|+|.|||||||||+++.+|+.+|...+.
T Consensus         3 ~~riil~G~pGSGKsT~a~~La~~~g~~~i~   33 (190)
T d1ak2a1           3 GVRAVLLGPPGAGKGTQAPKLAKNFCVCHLA   33 (190)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            4578889999999999999999999876543

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.40  E-value=0.00046  Score=62.17  Aligned_cols=38  Identities=26%  Similarity=0.448  Sum_probs=29.4

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccc
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHS   88 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~   88 (611)
                      ..|.-++|+||+|+||||.+-.+|..+   +..+..+++..
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt   47 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDT   47 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeccc
Confidence            346778999999999999999888765   55666666554

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.40  E-value=5.6e-05  Score=67.07  Aligned_cols=29  Identities=31%  Similarity=0.511  Sum_probs=26.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .|+|.||||+||||+++.||+.+|..++.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~~~i~   30 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGIPHIS   30 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceec
Confidence            58999999999999999999999887654

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.37  E-value=0.00014  Score=68.34  Aligned_cols=117  Identities=20%  Similarity=0.181  Sum_probs=68.5

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc----------------cccchHHHHHHHHHHHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----------------YVGESEALLRNTFQRAR  380 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~----------------~~g~~~~~~~~~~~~a~  380 (611)
                      |++..+-..|+||||+|||++|..++...   |...++++...-.+.                .....|+.+..+-...+
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~~  135 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIR  135 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHHh
Confidence            66777778899999999999997766544   666677666442221                11223443333323334


Q ss_pred             hcCCcEEEEcccccccccCCC---CCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEec
Q 007255          381 LAAPSIIFFDEADVVGAKRGG---SSSTSITVGERLLSTLLTEMDGLEQAKGILVLAAT  436 (611)
Q Consensus       381 ~~~p~il~iDeid~l~~~~~~---~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~t  436 (611)
                      ...+++++||-+..++++..-   ..........+.+..++..+.......++.+|++.
T Consensus       136 ~~~~~liIiDSi~al~~~~E~e~~~~~~~~~~~a~~l~~~l~~l~~~~~~~~~~vi~~N  194 (269)
T d1mo6a1         136 SGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFIN  194 (269)
T ss_dssp             TTCEEEEEEECSTTCCCHHHHC-------CCHHHHHHHHHHHHHHHHHHHHTCEEEEEE
T ss_pred             cCCCCEEEEecccccccHHHhccccccchHHHHHHHHHHHHHHHHHHHhhcCchhhhhh
Confidence            566789999999998864221   11112222345566666655444444567777654

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=97.37  E-value=0.00029  Score=59.09  Aligned_cols=35  Identities=31%  Similarity=0.319  Sum_probs=27.8

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecchh
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE  359 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~  359 (611)
                      +..++.+|+|+|||.++-.++...+..++.+.+..
T Consensus         9 ~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~P~~   43 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPSV   43 (136)
T ss_dssp             EEEEEECCTTSCTTTHHHHHHHTTTCCEEEEESCH
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEcChH
Confidence            45799999999999998777777777777666643

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=97.37  E-value=0.00026  Score=65.68  Aligned_cols=78  Identities=18%  Similarity=0.099  Sum_probs=52.4

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecch----hhccc------------------------cccch
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGA----ELYSM------------------------YVGES  368 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~----~~~~~------------------------~~g~~  368 (611)
                      |+++..-.+++||||+|||+++..+|...   +..+..++..    .+...                        .....
T Consensus        22 Gi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (242)
T d1tf7a2          22 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGL  101 (242)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSCHHHHHHHHHTTSCCHHHHHHTTSEEECCCCGGGSCH
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeeccCCHHHHHHHHHHcCCChHHHhhcCceEEEEeecchhhH
Confidence            56677778999999999999999998876   4444444321    11000                        00112


Q ss_pred             HHHHHHHHHHHHhcCCcEEEEcccccccc
Q 007255          369 EALLRNTFQRARLAAPSIIFFDEADVVGA  397 (611)
Q Consensus       369 ~~~~~~~~~~a~~~~p~il~iDeid~l~~  397 (611)
                      ...+..+........|.+++||.++.+..
T Consensus       102 ~~~~~~i~~~i~~~~~~~vviDs~~~~~~  130 (242)
T d1tf7a2         102 EDHLQIIKSEINDFKPARIAIDSLSALAR  130 (242)
T ss_dssp             HHHHHHHHHHHHTTCCSEEEEECHHHHTS
T ss_pred             HHHHHHHHHHHHhcCCceeeeecchhhhc
Confidence            34455666667778899999999998863

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.36  E-value=4.2e-05  Score=67.74  Aligned_cols=24  Identities=42%  Similarity=0.761  Sum_probs=22.7

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      ++|+|+||||||||++++.+++.+
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            689999999999999999999887

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=97.34  E-value=0.00016  Score=64.08  Aligned_cols=34  Identities=21%  Similarity=0.294  Sum_probs=29.7

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      |.+..+.++|+|||+||||+++.++++.++...+
T Consensus        49 ~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~vi   82 (205)
T d1tuea_          49 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVI   82 (205)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEEC
T ss_pred             CCCCceEEEEECCCCccHHHHHHHHHHHhCCEEE
Confidence            5667799999999999999999999999976543

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.33  E-value=5.5e-05  Score=67.20  Aligned_cols=29  Identities=31%  Similarity=0.548  Sum_probs=26.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      +|+|.|||||||||+++.+++.+|...+.
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~~~i~   30 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGIPQIS   30 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            68999999999999999999999877554

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.33  E-value=0.00032  Score=63.22  Aligned_cols=112  Identities=20%  Similarity=0.207  Sum_probs=62.8

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcc--------------------ccccchHHHHHHHHHH
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS--------------------MYVGESEALLRNTFQR  378 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~--------------------~~~g~~~~~~~~~~~~  378 (611)
                      ..|.-++|+||+|+|||+.+--+|..+   +..+.-+....+..                    ....+....++.....
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~   86 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQA   86 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHHHHH
Confidence            345668899999999999877777655   44544444432211                    0112234455555666


Q ss_pred             HHhcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHH---HHhcCC---CCCCCeEEEEecCCCcccchh
Q 007255          379 ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL---TEMDGL---EQAKGILVLAATNRPHAIDAA  445 (611)
Q Consensus       379 a~~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll---~~l~~~---~~~~~~~vI~~tn~~~~ld~a  445 (611)
                      ++...-++++||=....            ......+.+|-   +.+...   .+...++|+-++..++.+..+
T Consensus        87 a~~~~~d~ilIDTaGr~------------~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~  147 (211)
T d2qy9a2          87 AKARNIDVLIADTAGRL------------QNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQA  147 (211)
T ss_dssp             HHHTTCSEEEECCCCCG------------GGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHH
T ss_pred             HHHcCCCEEEeccCCCc------------cccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHH
Confidence            66666779999965433            11233344443   333222   233456666666666665443

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.33  E-value=4.9e-05  Score=66.56  Aligned_cols=28  Identities=29%  Similarity=0.425  Sum_probs=25.0

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEE
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFF  353 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~  353 (611)
                      -++|.|||||||||+|+.+|..++..++
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~~~~~~   31 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQLDNSAY   31 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSSEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCEE
Confidence            4789999999999999999999987654

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.32  E-value=5.7e-05  Score=66.28  Aligned_cols=29  Identities=28%  Similarity=0.386  Sum_probs=25.1

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHhCCc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAAEAS  351 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~~~~  351 (611)
                      .+..++|.||||+||||+|+.||..++..
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l~~~   32 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAELDGF   32 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHSTTE
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHhCCC
Confidence            34559999999999999999999998753

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.28  E-value=0.00054  Score=61.86  Aligned_cols=37  Identities=22%  Similarity=0.355  Sum_probs=27.4

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccc
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~   87 (611)
                      ..|.-++|+||+|+||||.+-.+|..+   +..+..+++.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~D   48 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAAD   48 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeec
Confidence            356778999999999999988888665   4444444443

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.28  E-value=9e-05  Score=66.50  Aligned_cols=30  Identities=27%  Similarity=0.483  Sum_probs=26.5

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      |.-|+|.||||+||||+|+.+|+.+|...+
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~g~~~i   30 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKYGYTHL   30 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCceE
Confidence            567899999999999999999999986543

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.28  E-value=9.3e-05  Score=65.72  Aligned_cols=29  Identities=28%  Similarity=0.528  Sum_probs=26.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .|+|.||||+||||+++.||+.++...+.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g~~~is   30 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYGTPHIS   30 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceee
Confidence            58999999999999999999999887554

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.27  E-value=4.5e-05  Score=68.34  Aligned_cols=36  Identities=17%  Similarity=0.273  Sum_probs=29.4

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      -.++|.|||||||||+|+.||..+|.+++  +.+++..
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~~~~~i--s~~~~~~   39 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKYQLAHI--SAGDLLR   39 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHCCEEC--CHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHCCcEE--ehhHHHH
Confidence            35899999999999999999999998875  4444443

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.27  E-value=5.4e-05  Score=67.04  Aligned_cols=24  Identities=46%  Similarity=0.726  Sum_probs=22.7

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      ++++|+||||||||+++++++..+
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            679999999999999999999887

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.25  E-value=0.00032  Score=63.25  Aligned_cols=108  Identities=25%  Similarity=0.232  Sum_probs=55.8

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcc--------------------ccccchHHHHHHHHHHHHh
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS--------------------MYVGESEALLRNTFQRARL  381 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~--------------------~~~g~~~~~~~~~~~~a~~  381 (611)
                      +-++|.||+|+|||+.+--+|..+   +..+..++...+..                    ....+...........++.
T Consensus        11 ~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~~~   90 (207)
T d1ls1a2          11 NLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARL   90 (207)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccchHHHHHHHHHHhcCCccccccccchhhHHHHHHHHHHhh
Confidence            346889999999999888777665   44444444322111                    0111222233333344455


Q ss_pred             cCCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcccch
Q 007255          382 AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHAIDA  444 (611)
Q Consensus       382 ~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~ld~  444 (611)
                      ..-++++||=+....            .......+|....+...+...++|+.++...+.++.
T Consensus        91 ~~~d~vlIDTaGr~~------------~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~  141 (207)
T d1ls1a2          91 EARDLILVDTAGRLQ------------IDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSV  141 (207)
T ss_dssp             HTCCEEEEECCCCSS------------CCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHH
T ss_pred             ccCcceeecccccch------------hhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHH
Confidence            566789998654321            123344555444443334444455555554444443

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.23  E-value=0.00078  Score=60.55  Aligned_cols=37  Identities=24%  Similarity=0.329  Sum_probs=28.4

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHS   88 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~   88 (611)
                      .+.-++|+||+|+||||.+-.+|..+   |..+..+++..
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt   44 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDT   44 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEecc
Confidence            45788999999999999998888765   45555555543

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.23  E-value=0.00011  Score=65.97  Aligned_cols=36  Identities=22%  Similarity=0.434  Sum_probs=29.7

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~   89 (611)
                      .++-|+|.||||+||||+++.+|+.+|...  ++..++
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~g~~~--is~g~l   42 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKYGYTH--LSTGDL   42 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHTCCEE--EEHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCee--EeccHH
Confidence            457899999999999999999999998654  454444

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.23  E-value=0.00062  Score=61.22  Aligned_cols=111  Identities=21%  Similarity=0.233  Sum_probs=59.0

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhccc----------------cc----cchHHHHHHHHHHHH
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----------------YV----GESEALLRNTFQRAR  380 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~~----------------~~----g~~~~~~~~~~~~a~  380 (611)
                      ++-++|+||+|+|||+.+--+|..+   |..+.-+....+...                +.    .+....+......++
T Consensus         6 ~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~~~~~~   85 (207)
T d1okkd2           6 GRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAVQAMK   85 (207)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeccccccchhhHhhcccccCceEEeccCCccHHHHHHHHHHHHH
Confidence            4567899999999999877777665   444443333221110                11    112233333344445


Q ss_pred             hcCCcEEEEcccccccccCCCCCCCCcchhHHHHHHH------HHHhcCCCCCCCeEEEEecCCCcccchhc
Q 007255          381 LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL------LTEMDGLEQAKGILVLAATNRPHAIDAAL  446 (611)
Q Consensus       381 ~~~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~l------l~~l~~~~~~~~~~vI~~tn~~~~ld~al  446 (611)
                      ...-++|+||=+.....            ......++      ....+...+...++|+-++..++.++.+.
T Consensus        86 ~~~~d~ilIDTaGr~~~------------d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~  145 (207)
T d1okkd2          86 ARGYDLLFVDTAGRLHT------------KHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAK  145 (207)
T ss_dssp             HHTCSEEEECCCCCCTT------------CHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHH
T ss_pred             HCCCCEEEcCccccchh------------hHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHH
Confidence            55667999997643311            12222332      22223223445567776777776655443

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.23  E-value=0.00012  Score=64.86  Aligned_cols=30  Identities=27%  Similarity=0.428  Sum_probs=26.4

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ..|+|.||||+||||+++.||+.+|...+.
T Consensus         3 mrIvl~G~pGSGKtT~a~~La~~~g~~~i~   32 (180)
T d1akya1           3 IRMVLIGPPGAGKGTQAPNLQERFHAAHLA   32 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCceEe
Confidence            468899999999999999999999877544

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.20  E-value=0.00015  Score=64.82  Aligned_cols=35  Identities=17%  Similarity=0.343  Sum_probs=28.8

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~   89 (611)
                      ...|+|.||||+||||+++.+|+.+|..+  ++..++
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~g~~~--is~gdl   40 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHFELKH--LSSGDL   40 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHBCCEE--EEHHHH
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHHCCeE--EcHHHH
Confidence            36789999999999999999999998665  444444

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.20  E-value=8.1e-05  Score=65.98  Aligned_cols=34  Identities=26%  Similarity=0.386  Sum_probs=28.3

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      ++|.||||+||||+|+.||..+|..++.  .+++..
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~~~~~i~--~~~ll~   36 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAYGIPHIS--TGDMFR   36 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEE--HHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCceec--hhHHHH
Confidence            7899999999999999999999887754  444443

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.19  E-value=0.00013  Score=65.49  Aligned_cols=31  Identities=19%  Similarity=0.342  Sum_probs=26.8

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ..-|+|.||||+||||+|+.||+.+|...+.
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~~~g~~~is   38 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVKDYSFVHLS   38 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHSSCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            3568999999999999999999999876543

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.17  E-value=0.00011  Score=64.59  Aligned_cols=27  Identities=22%  Similarity=0.271  Sum_probs=24.0

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGA   79 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~   79 (611)
                      +..|+|+|+||+||||+++++|+.++.
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            456889999999999999999999854

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.17  E-value=0.00014  Score=64.40  Aligned_cols=29  Identities=21%  Similarity=0.410  Sum_probs=26.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      .|+|.||||+||||+++.+|+.++...+.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~~~i~   30 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGIPQIS   30 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            58899999999999999999999877554

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.17  E-value=9.7e-05  Score=66.09  Aligned_cols=34  Identities=29%  Similarity=0.426  Sum_probs=27.7

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      -++|.||||+||||+|+.||..+|..++.  .++++
T Consensus         5 riil~G~pGSGKsT~a~~La~~~g~~~i~--~gdll   38 (190)
T d1ak2a1           5 RAVLLGPPGAGKGTQAPKLAKNFCVCHLA--TGDML   38 (190)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEEE--HHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEe--HHHHH
Confidence            36788999999999999999999877644  44554

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.16  E-value=0.00025  Score=64.22  Aligned_cols=35  Identities=20%  Similarity=0.316  Sum_probs=27.8

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVISPH   87 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~---~~~~~v~~~   87 (611)
                      |--|+++|.||+||||+++.|++.++   .....++..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~~D   39 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVG   39 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEccc
Confidence            45689999999999999999998874   455555544

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.15  E-value=0.0001  Score=66.10  Aligned_cols=37  Identities=19%  Similarity=0.207  Sum_probs=29.4

Q ss_pred             CCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      .|.-+++.||||+||||+|+.||..+|...+  +..++.
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~g~~~i--~~g~~~   41 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDFGWVHL--SAGDLL   41 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHCCEEE--EHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHCCceE--chhhHH
Confidence            3456889999999999999999999987654  444443

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.14  E-value=9.7e-05  Score=65.53  Aligned_cols=30  Identities=37%  Similarity=0.400  Sum_probs=26.3

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      .++|.|||||||||+|+.||..+|...+.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~~~i~~   31 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGIPQIST   31 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceEch
Confidence            378999999999999999999998877643

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=97.13  E-value=0.00063  Score=61.34  Aligned_cols=27  Identities=26%  Similarity=0.078  Sum_probs=17.6

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +.|.-++|+||+|+|||+.+--+|..+
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~   36 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFY   36 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            445668899999999999877777655

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.10  E-value=4.9e-05  Score=67.02  Aligned_cols=26  Identities=19%  Similarity=0.174  Sum_probs=22.8

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCC
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEA  350 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~  350 (611)
                      ..++|+|+||+||||+|++||..++.
T Consensus         7 ~~I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           7 FTIFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            34788999999999999999999854

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=97.10  E-value=0.0012  Score=60.96  Aligned_cols=38  Identities=29%  Similarity=0.324  Sum_probs=30.7

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~   86 (611)
                      |+.+..-++++||||+|||+++..+|...   +.....++.
T Consensus        22 Gi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~   62 (242)
T d1tf7a2          22 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAY   62 (242)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEES
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeec
Confidence            57777899999999999999999998875   445555543

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.09  E-value=0.00012  Score=65.51  Aligned_cols=34  Identities=26%  Similarity=0.411  Sum_probs=28.0

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      -++|.||||+|||++|+.||..+|..++  +.++++
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~g~~~i--s~gdll   41 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHFELKHL--SSGDLL   41 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHBCCEEE--EHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHCCeEE--cHHHHH
Confidence            3778899999999999999999987764  555554

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.08  E-value=0.00012  Score=64.92  Aligned_cols=28  Identities=29%  Similarity=0.344  Sum_probs=25.6

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      ++|.||||+||||+|+.||..++..++.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~g~~~is   30 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKYGTPHIS   30 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCceee
Confidence            6889999999999999999999887764

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.08  E-value=0.00016  Score=63.53  Aligned_cols=31  Identities=23%  Similarity=0.408  Sum_probs=26.5

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~   81 (611)
                      +.|.-|+++|+||+||||+++.++...+...
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~~~~~   42 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSAGYVH   42 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGGTCEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhcCCEE
Confidence            4567899999999999999999988877543

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.07  E-value=0.00013  Score=65.60  Aligned_cols=29  Identities=21%  Similarity=0.234  Sum_probs=25.8

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      -++|.||||+|||++|+.||..+|..++.
T Consensus        10 iI~i~GppGSGKsT~a~~La~~~g~~~is   38 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKLVKDYSFVHLS   38 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            47889999999999999999999887654

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.06  E-value=0.00014  Score=64.35  Aligned_cols=29  Identities=31%  Similarity=0.442  Sum_probs=25.5

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      ++|.||||+|||++|+.||..+|..++..
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g~~~i~~   33 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFHAAHLAT   33 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceEec
Confidence            67889999999999999999998776543

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.02  E-value=0.00066  Score=61.26  Aligned_cols=27  Identities=26%  Similarity=0.194  Sum_probs=21.4

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      ..|+-++|+||+|+|||+.+--+|..+
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~   35 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMF   35 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            345668999999999999877777555

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.99  E-value=0.00017  Score=61.63  Aligned_cols=34  Identities=24%  Similarity=0.378  Sum_probs=25.1

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecchhh
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~  360 (611)
                      -++++||||+|||++|+.++.... .+..++..++
T Consensus         4 lIii~G~pGsGKTTla~~L~~~~~-~~~~~~~d~~   37 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAKNP-GFYNINRDDY   37 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHST-TEEEECHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCC-CCEEechHHH
Confidence            378899999999999999876543 3445555444

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.99  E-value=0.00027  Score=60.29  Aligned_cols=34  Identities=24%  Similarity=0.402  Sum_probs=25.8

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~   88 (611)
                      +-|+|+||||+||||+++.+++... ....++..+
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~~-~~~~~~~d~   36 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKNP-GFYNINRDD   36 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHST-TEEEECHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhCC-CCEEechHH
Confidence            3588999999999999999877653 355555444

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.99  E-value=9.4e-05  Score=66.20  Aligned_cols=27  Identities=26%  Similarity=0.234  Sum_probs=24.0

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGA   79 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~   79 (611)
                      +..|+|+|+||+||||+++.+|+.++.
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~   45 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVC   45 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            457889999999999999999999854

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=96.98  E-value=0.00087  Score=65.93  Aligned_cols=22  Identities=41%  Similarity=0.613  Sum_probs=18.2

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~   75 (611)
                      +-.++.||||||||+++..+..
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l~  185 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLLA  185 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCceehHHHHHH
Confidence            5789999999999998865443

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.98  E-value=0.00027  Score=64.60  Aligned_cols=34  Identities=26%  Similarity=0.500  Sum_probs=27.9

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~   89 (611)
                      +-|.+.|||||||+|+++.||+.+|.++  ++..++
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~gl~~--iStGdL   37 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEALQWHL--LDSGAI   37 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEE--EEHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCcE--ECHHHH
Confidence            3677889999999999999999998775  554444

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=96.98  E-value=0.0012  Score=66.12  Aligned_cols=96  Identities=13%  Similarity=0.205  Sum_probs=63.8

Q ss_pred             CCcccccccchhHHHHHHHHHhhccCCChhHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHHhC---CcEEeec-chhh
Q 007255          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE---ASFFSLS-GAEL  360 (611)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~---~~~~~~~-~~~~  360 (611)
                      +..++++++-.+...+.+++.+.              .+..-+|+.||+|+|||+...++-++++   .+++.+. +.+.
T Consensus       133 ~~~~l~~LG~~~~~~~~l~~l~~--------------~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~  198 (401)
T d1p9ra_         133 TRLDLHSLGMTAHNHDNFRRLIK--------------RPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEF  198 (401)
T ss_dssp             TCCCGGGSCCCHHHHHHHHHHHT--------------SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCS
T ss_pred             cchhhhhhcccHHHHHHHHHHHh--------------hhhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCccc
Confidence            44568888777777777777765              2334578899999999999999998874   3444442 2222


Q ss_pred             ccc------cccchHHHHHHHHHHHHhcCCcEEEEccccc
Q 007255          361 YSM------YVGESEALLRNTFQRARLAAPSIIFFDEADV  394 (611)
Q Consensus       361 ~~~------~~g~~~~~~~~~~~~a~~~~p~il~iDeid~  394 (611)
                      .-.      ..+.........++.+....|+||+|.|+..
T Consensus       199 ~~~~~~q~~v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd  238 (401)
T d1p9ra_         199 DIDGIGQTQVNPRVDMTFARGLRAILRQDPDVVMVGEIRD  238 (401)
T ss_dssp             CCSSSEEEECBGGGTBCHHHHHHHHGGGCCSEEEESCCCS
T ss_pred             ccCCCCeeeecCCcCCCHHHHHHHHHhhcCCEEEecCcCC
Confidence            111      1112222355666677788999999999963

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=96.97  E-value=0.00047  Score=57.55  Aligned_cols=20  Identities=25%  Similarity=0.132  Sum_probs=16.3

Q ss_pred             CCCCcceeCCCCCChHHHHH
Q 007255          323 PVRGALLHGPPGCSKTTLAK  342 (611)
Q Consensus       323 ~~~~~Ll~Gp~G~GKT~la~  342 (611)
                      .....+|++|+|+|||..+-
T Consensus         6 ~~~~~il~~~tGsGKT~~~~   25 (140)
T d1yksa1           6 KGMTTVLDFHPGAGKTRRFL   25 (140)
T ss_dssp             TTCEEEECCCTTSSTTTTHH
T ss_pred             cCCcEEEEcCCCCChhHHHH
Confidence            35678999999999996663

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.97  E-value=0.00018  Score=64.56  Aligned_cols=36  Identities=22%  Similarity=0.294  Sum_probs=29.4

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhcc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~  362 (611)
                      .-++|.||||+||||+|+.||..+|..+  ++.+++..
T Consensus         9 ~iI~l~G~pGSGKsT~a~~La~~~g~~~--is~g~llr   44 (194)
T d3adka_           9 KIIFVVGGPGSGKGTQCEKIVQKYGYTH--LSTGDLLR   44 (194)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTCCEE--EEHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCee--EeccHHHH
Confidence            4588999999999999999999998766  45555544

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.96  E-value=0.0001  Score=67.40  Aligned_cols=27  Identities=22%  Similarity=0.226  Sum_probs=22.5

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .+..-+-|.||+||||||+.++++...
T Consensus        24 ~~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          24 ESGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             CTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            444457899999999999999999655

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.94  E-value=0.001  Score=59.77  Aligned_cols=36  Identities=19%  Similarity=0.286  Sum_probs=27.4

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHS   88 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~   88 (611)
                      ++-++|+||+|+||||.+-.+|..+   +..+..+++..
T Consensus        10 ~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt   48 (207)
T d1ls1a2          10 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADT   48 (207)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeccc
Confidence            4557889999999999999888765   55555565543

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.94  E-value=0.00019  Score=63.38  Aligned_cols=28  Identities=25%  Similarity=0.198  Sum_probs=25.3

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      ++|.||||+||||+|+.||..++..++.
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~~~~~i~   30 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKYGIPQIS   30 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            6789999999999999999999887654

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.94  E-value=0.00055  Score=61.79  Aligned_cols=34  Identities=15%  Similarity=0.131  Sum_probs=26.3

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhC---CcEEeecchh
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAE---ASFFSLSGAE  359 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~---~~~~~~~~~~  359 (611)
                      -++++|.||+||||+|++||..++   .+...++...
T Consensus         4 li~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~~D~   40 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQ   40 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEcccc
Confidence            378999999999999999998873   4454555443

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.92  E-value=0.00015  Score=66.84  Aligned_cols=27  Identities=33%  Similarity=0.437  Sum_probs=22.3

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .+..-+-|.||+|+|||+++++++...
T Consensus        27 ~~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          27 KDGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            344457799999999999999999655

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.91  E-value=0.00016  Score=63.51  Aligned_cols=32  Identities=19%  Similarity=0.177  Sum_probs=26.7

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCcEE
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~  353 (611)
                      +.|.-++++|+||||||++|+.++...+..++
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~~~~~i   43 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHV   43 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGGTCEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhcCCEEE
Confidence            44566889999999999999999988776554

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=96.90  E-value=0.0033  Score=52.25  Aligned_cols=34  Identities=29%  Similarity=0.440  Sum_probs=27.1

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~   87 (611)
                      ...+|.+|+|+|||+++-.++...+..++.+...
T Consensus         9 ~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~P~   42 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPS   42 (136)
T ss_dssp             EEEEEECCTTSCTTTHHHHHHHTTTCCEEEEESC
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEcCh
Confidence            5789999999999999887777777776665543

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.88  E-value=0.0006  Score=62.66  Aligned_cols=78  Identities=15%  Similarity=0.033  Sum_probs=49.5

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh----CCcEEeecchhhccc--------------------------------
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELYSM--------------------------------  363 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~~~~~~~~--------------------------------  363 (611)
                      |+++..-++|+||||+|||++|..+|...    +..+..++...-...                                
T Consensus        22 Gi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (242)
T d1tf7a1          22 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEG  101 (242)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHHGGGTCCHHHHHHTTSEEEEECCCCSSC
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccccCCHHHHHHHHHHcCCChHHHHHhcchhhhhhccchhh
Confidence            56777778999999999999997665332    444544433210000                                


Q ss_pred             ----cccchHHHHHHHHHHHHhcCCcEEEEcccccccc
Q 007255          364 ----YVGESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (611)
Q Consensus       364 ----~~g~~~~~~~~~~~~a~~~~p~il~iDeid~l~~  397 (611)
                          ...+....+..+...+....|.+++||.+..+..
T Consensus       102 ~~~~~~~~~~~l~~~l~~~i~~~~~~~viiD~~~~l~~  139 (242)
T d1tf7a1         102 QEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQ  139 (242)
T ss_dssp             CSCCSSHHHHHHHHHHHHHHHHHTCSEEEEECSTTTST
T ss_pred             hhhhccccHHHHHHHHHHHHHhhccchhhhhHHHHHHH
Confidence                0011233445566666778899999999988764

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.87  E-value=5.7e-05  Score=67.67  Aligned_cols=26  Identities=27%  Similarity=0.265  Sum_probs=22.6

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCc
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEAS  351 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~  351 (611)
                      -++|+|+||+||||+|++||..++..
T Consensus        21 vI~L~G~pGSGKTTiAk~La~~l~~~   46 (195)
T d1x6va3          21 TVWLTGLSGAGKTTVSMALEEYLVCH   46 (195)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            46688999999999999999988543

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.86  E-value=0.00014  Score=66.62  Aligned_cols=27  Identities=30%  Similarity=0.460  Sum_probs=22.6

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .+..-+-|.||+||||||+.+.++...
T Consensus        24 ~~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          24 HEGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            444567899999999999999999655

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.84  E-value=0.00026  Score=63.30  Aligned_cols=34  Identities=24%  Similarity=0.292  Sum_probs=27.8

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      -++|.||||+||||.|+.||..+|...+  +.++++
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~g~~~i--~~g~ll   36 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKYGYTHL--SAGELL   36 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEE--EHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceE--cHHHHH
Confidence            3789999999999999999999986654  445554

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.83  E-value=0.00045  Score=63.10  Aligned_cols=33  Identities=15%  Similarity=0.507  Sum_probs=26.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~   89 (611)
                      .|.+.||||+||||+|+.||+++|.++  ++..++
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~lg~~~--istGdl   37 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDFGFTY--LDTGAM   37 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHCCEE--EEHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcE--ECHHHH
Confidence            466779999999999999999999774  444443

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.83  E-value=0.00045  Score=61.65  Aligned_cols=31  Identities=29%  Similarity=0.599  Sum_probs=26.4

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v   84 (611)
                      ++|+|+||+|+|||++++.+++..+..+...
T Consensus         1 rpIvl~GPsGsGK~tl~~~L~~~~~~~~~~~   31 (190)
T d1lvga_           1 RPVVLSGPSGAGKSTLLKKLFQEHSSIFGFS   31 (190)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHTTTEEEC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCCceeEE
Confidence            3689999999999999999999987665443

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=96.81  E-value=0.0012  Score=64.88  Aligned_cols=19  Identities=32%  Similarity=0.441  Sum_probs=15.8

Q ss_pred             CcceeCCCCCChHHHHHHH
Q 007255          326 GALLHGPPGCSKTTLAKAA  344 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~al  344 (611)
                      -.++.||||||||+++..+
T Consensus       165 ~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEEECCTTSTHHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHHH
Confidence            4789999999999987544

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.80  E-value=0.00031  Score=64.21  Aligned_cols=34  Identities=35%  Similarity=0.528  Sum_probs=28.0

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      -+.+.||||+||+|+|+.||+.+|.++  ++.++++
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl~~--iStGdLl   38 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQWHL--LDSGAIY   38 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEE--EEHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcE--ECHHHHH
Confidence            366779999999999999999998776  5555554

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.80  E-value=0.00084  Score=60.46  Aligned_cols=37  Identities=24%  Similarity=0.386  Sum_probs=23.5

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccc
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~   87 (611)
                      +.|.-++|+||+|+||||.+-.+|..+   +..+..+++.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~D   49 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGAD   49 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEee
Confidence            356778999999999999988887665   4455444443

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.78  E-value=0.00045  Score=61.39  Aligned_cols=29  Identities=31%  Similarity=0.649  Sum_probs=25.3

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      ++|+|+||+|+|||++++.++++....+.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~~   30 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSFG   30 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCccee
Confidence            57999999999999999999999865543

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.73  E-value=0.00037  Score=63.76  Aligned_cols=32  Identities=28%  Similarity=0.509  Sum_probs=25.9

Q ss_pred             ceeCCCCCChHHHHHHHHHHhCCcEEeecchhhc
Q 007255          328 LLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (611)
Q Consensus       328 Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~  361 (611)
                      .+.||||+||||+|+.||..+|.++  ++.++++
T Consensus         7 aIdGp~GsGKgT~ak~La~~lg~~~--istGdl~   38 (223)
T d1q3ta_           7 AIDGPASSGKSTVAKIIAKDFGFTY--LDTGAMY   38 (223)
T ss_dssp             EEECSSCSSHHHHHHHHHHHHCCEE--EEHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHhCCcE--ECHHHHH
Confidence            3569999999999999999999886  4444443

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=96.71  E-value=0.007  Score=60.24  Aligned_cols=93  Identities=22%  Similarity=0.325  Sum_probs=59.3

Q ss_pred             ccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCC---cEEEEc-cccccc
Q 007255           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA---HLTVIS-PHSVHK   91 (611)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~---~~~~v~-~~~~~~   91 (611)
                      ..+++++-.....+.+.+++..              +..-+|+.||+|+||||.+.++.++++.   +++.+- +-+..-
T Consensus       135 ~~l~~LG~~~~~~~~l~~l~~~--------------~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~  200 (401)
T d1p9ra_         135 LDLHSLGMTAHNHDNFRRLIKR--------------PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDI  200 (401)
T ss_dssp             CCGGGSCCCHHHHHHHHHHHTS--------------SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCC
T ss_pred             hhhhhhcccHHHHHHHHHHHhh--------------hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCccccc
Confidence            5678888888888888887633              3467999999999999999999998843   344442 111110


Q ss_pred             ------ccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccc
Q 007255           92 ------AHVGESEKALREAFSQASSHALSGKPSVVFIDEID  126 (611)
Q Consensus        92 ------~~~~~~~~~l~~~f~~~~~~~~~~~~~il~IDeid  126 (611)
                            .........    |..+........|.||+|.|+-
T Consensus       201 ~~~~q~~v~~~~~~~----~~~~l~~~lR~dPDvi~igEiR  237 (401)
T d1p9ra_         201 DGIGQTQVNPRVDMT----FARGLRAILRQDPDVVMVGEIR  237 (401)
T ss_dssp             SSSEEEECBGGGTBC----HHHHHHHHGGGCCSEEEESCCC
T ss_pred             CCCCeeeecCCcCCC----HHHHHHHHHhhcCCEEEecCcC
Confidence                  000111111    3333333334469999999994

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.71  E-value=0.00039  Score=61.33  Aligned_cols=26  Identities=19%  Similarity=0.376  Sum_probs=23.5

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCC
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGA   79 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~   79 (611)
                      +-|+|.|+||+||||+++.+++.++.
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~   27 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRK   27 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57899999999999999999998853

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.68  E-value=0.00024  Score=65.25  Aligned_cols=22  Identities=27%  Similarity=0.474  Sum_probs=19.5

Q ss_pred             cceeCCCCCChHHHHHHHHHHh
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +.|.||+|+|||++.+.++...
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            4578999999999999999765

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.66  E-value=0.00018  Score=66.16  Aligned_cols=27  Identities=33%  Similarity=0.418  Sum_probs=22.7

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .+..-+-|.||+||||||+.+.++...
T Consensus        30 ~~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          30 KDGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            444557899999999999999999765

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=96.65  E-value=0.0058  Score=57.08  Aligned_cols=32  Identities=25%  Similarity=0.365  Sum_probs=27.7

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~   81 (611)
                      .+..+.++|+||++||||+++.++++.+|...
T Consensus       101 ~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~~~  132 (267)
T d1u0ja_         101 FGKRNTIWLFGPATTGKTNIAEAIAHTVPFYG  132 (267)
T ss_dssp             STTCCEEEEECSTTSSHHHHHHHHHHHSSCEE
T ss_pred             CCccEEEEEEcCCCCCHHHHHHHHHHHhcchh
Confidence            35668899999999999999999999997543

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.63  E-value=0.00014  Score=67.11  Aligned_cols=28  Identities=29%  Similarity=0.309  Sum_probs=23.1

Q ss_pred             CCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          321 ISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       321 ~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +....-+-|.||+||||||+.++++...
T Consensus        28 i~~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          28 IENGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            3445568899999999999999999654

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.61  E-value=0.00035  Score=67.73  Aligned_cols=70  Identities=16%  Similarity=0.170  Sum_probs=47.2

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhC--CcEEee-cchhhcc-------ccccchHHHHHHHHHHHHhcCCcEEEEcccc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAE--ASFFSL-SGAELYS-------MYVGESEALLRNTFQRARLAAPSIIFFDEAD  393 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~--~~~~~~-~~~~~~~-------~~~g~~~~~~~~~~~~a~~~~p~il~iDeid  393 (611)
                      ..++|++||+|+|||++.++++.+..  ..++.+ +..++.-       ...+..+-.+..+++.+....|+.+++.|+.
T Consensus       166 ~~nili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~~lR~~pd~iivgEiR  245 (323)
T d1g6oa_         166 GKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGELR  245 (323)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEESCCC
T ss_pred             CCCEEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccchhHHHHHHHHhccCCCcccCCccC
Confidence            35799999999999999999998873  333333 1222110       1122222345667777778899999999984

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=96.61  E-value=0.0037  Score=58.42  Aligned_cols=85  Identities=28%  Similarity=0.417  Sum_probs=52.3

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccccc----cc--------chHHHHHHHHHHHHhhhh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH----VG--------ESEKALREAFSQASSHAL  113 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~~~----~~--------~~~~~l~~~f~~~~~~~~  113 (611)
                      |++...-..++||+|||||+++-.++...   |..+++++.....+..    .|        .......+.++.+.....
T Consensus        53 Gip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~  132 (268)
T d1xp8a1          53 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVR  132 (268)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHHHHHHHHHh
Confidence            55667789999999999999999876544   6667777765322110    00        000012223333333333


Q ss_pred             cCCCeEEEEccccccCCCCC
Q 007255          114 SGKPSVVFIDEIDALCPRRD  133 (611)
Q Consensus       114 ~~~~~il~IDeid~l~~~~~  133 (611)
                      ...+.++++|=+-.+.+..+
T Consensus       133 ~~~~~liIiDSi~al~~r~e  152 (268)
T d1xp8a1         133 SGAIDVVVVDSVAALTPRAE  152 (268)
T ss_dssp             TTCCSEEEEECTTTCCCSTT
T ss_pred             cCCCcEEEEecccccccHHH
Confidence            45678999999998886543

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=96.60  E-value=0.00057  Score=59.21  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=21.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHh
Q 007255           55 GLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      .+.++|++|||||||++.+++.+
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            68899999999999999999876

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.57  E-value=0.0063  Score=55.37  Aligned_cols=38  Identities=26%  Similarity=0.307  Sum_probs=28.2

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHH----hCCcEEEEcc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE----CGAHLTVISP   86 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~----l~~~~~~v~~   86 (611)
                      |+++..-++|+|+||+|||+++..++..    -+..+..++.
T Consensus        22 Gi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~   63 (242)
T d1tf7a1          22 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTF   63 (242)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccc
Confidence            6778889999999999999999765432    2445555544

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.56  E-value=0.0011  Score=60.41  Aligned_cols=27  Identities=19%  Similarity=0.229  Sum_probs=22.3

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .....+-|.||+|||||||.+.++...
T Consensus        29 ~~Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          29 KEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCcchhhHhccCCC
Confidence            445567899999999999999998544

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.56  E-value=0.0024  Score=59.26  Aligned_cols=28  Identities=21%  Similarity=0.165  Sum_probs=23.3

Q ss_pred             CCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          321 ISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       321 ~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +.+..-+.+.||+|+||||+++.++...
T Consensus        41 i~~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          41 IEKGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            3555668899999999999999998654

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.54  E-value=0.00028  Score=64.98  Aligned_cols=27  Identities=19%  Similarity=0.156  Sum_probs=22.2

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      ....-+-|.||+|||||++++.++...
T Consensus        29 ~~Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          29 PAGQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             CSSCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            344557899999999999999998654

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.53  E-value=0.0014  Score=60.38  Aligned_cols=27  Identities=22%  Similarity=0.143  Sum_probs=23.1

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      ++..-+-+.||+|+|||||+++++..+
T Consensus        27 ~~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          27 KQGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            445568899999999999999999765

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=96.49  E-value=0.0018  Score=61.25  Aligned_cols=37  Identities=14%  Similarity=0.038  Sum_probs=28.5

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh----CCcEEeec
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLS  356 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~  356 (611)
                      |+.+..-+++.|+||+|||+++..+|..+    +.++..++
T Consensus        31 G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s   71 (277)
T d1cr2a_          31 GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM   71 (277)
T ss_dssp             SBCTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEee
Confidence            66777778999999999999988887542    55665554

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.48  E-value=0.0019  Score=59.99  Aligned_cols=28  Identities=25%  Similarity=0.291  Sum_probs=23.5

Q ss_pred             CCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          321 ISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       321 ~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +++..-+-++||+|||||||+++++...
T Consensus        38 i~~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          38 IPAGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             ECTTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhccc
Confidence            3555668899999999999999998655

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.44  E-value=0.0011  Score=61.59  Aligned_cols=28  Identities=29%  Similarity=0.382  Sum_probs=23.4

Q ss_pred             CCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          321 ISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       321 ~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +.+..-+-+.||+|+|||||+++++...
T Consensus        37 i~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          37 LRPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            3555668899999999999999998655

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.44  E-value=0.0094  Score=54.43  Aligned_cols=103  Identities=21%  Similarity=0.140  Sum_probs=55.0

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh-----CCc--------------EEeecchhhccccccchHH---HHHHHHHHHHhc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA-----EAS--------------FFSLSGAELYSMYVGESEA---LLRNTFQRARLA  382 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~-----~~~--------------~~~~~~~~~~~~~~g~~~~---~~~~~~~~a~~~  382 (611)
                      +.++++||..+|||++.+++|-..     |+.              +..+...+-.......+..   .++.+++.+  .
T Consensus        42 ~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d~I~~~~~~~d~~~~~~S~F~~E~~~~~~il~~~--~  119 (234)
T d1wb9a2          42 RMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANILHNA--T  119 (234)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCCEEEEEEC-----------CHHHHHHHHHHHHHC--C
T ss_pred             eEEEEeccCchhhHHHHHHHHHHHHHHHcCCeEecCceecccchhheeEEccCcccccchhHHHHHHHHHHHHHHhc--c
Confidence            568999999999999999998654     322              1122222211111111122   344444433  3


Q ss_pred             CCcEEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc
Q 007255          383 APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA  441 (611)
Q Consensus       383 ~p~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~  441 (611)
                      ..++++|||+-+=         ........+..+++..+.   ......+|.||...+.
T Consensus       120 ~~sLvliDE~~~g---------T~~~eg~~l~~a~l~~l~---~~~~~~~i~tTH~~~l  166 (234)
T d1wb9a2         120 EYSLVLMDEIGRG---------TSTYDGLSLAWACAENLA---NKIKALTLFATHYFEL  166 (234)
T ss_dssp             TTEEEEEESCCCC---------SSSSHHHHHHHHHHHHHH---HTTCCEEEEECSCGGG
T ss_pred             cccEEeecccccC---------CChhhhhHHHHHhhhhhh---ccccceEEEecchHHH
Confidence            4579999998421         122233455556665552   3345567778876654

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.43  E-value=0.0018  Score=62.60  Aligned_cols=69  Identities=12%  Similarity=0.271  Sum_probs=42.1

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCC--cEEEE-ccccccc-------ccccchHHHHHHHHHHHHhhhhcCCCeEEEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGA--HLTVI-SPHSVHK-------AHVGESEKALREAFSQASSHALSGKPSVVFI  122 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~--~~~~v-~~~~~~~-------~~~~~~~~~l~~~f~~~~~~~~~~~~~il~I  122 (611)
                      ..++|++||+|+||||++++++..+..  .++++ +..++.-       .......-.+.+++..+.    ...|..+++
T Consensus       166 ~~nili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~~l----R~~pd~iiv  241 (323)
T d1g6oa_         166 GKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCL----RMRPDRIIL  241 (323)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHT----TSCCSEEEE
T ss_pred             CCCEEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccchhHHHHHHHHh----ccCCCcccC
Confidence            368999999999999999999988853  33333 1222110       000111112334444333    346999999


Q ss_pred             ccc
Q 007255          123 DEI  125 (611)
Q Consensus       123 Dei  125 (611)
                      .|+
T Consensus       242 gEi  244 (323)
T d1g6oa_         242 GEL  244 (323)
T ss_dssp             SCC
T ss_pred             Ccc
Confidence            999

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.32  E-value=0.00096  Score=58.62  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=22.2

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCC
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEA  350 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~  350 (611)
                      -++|.||||+||||+++.++..++.
T Consensus         3 iI~i~G~~GsGKsT~~~~L~~~l~~   27 (190)
T d1khta_           3 VVVVTGVPGVGSTTSSQLAMDNLRK   27 (190)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4789999999999999999998743

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=96.30  E-value=0.0046  Score=51.06  Aligned_cols=21  Identities=33%  Similarity=0.213  Sum_probs=17.2

Q ss_pred             CCCceEEEEcCCCCcHHHHHH
Q 007255           51 KWPRGLLLYGPPGTGKTSLVR   71 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~   71 (611)
                      +...+.+|++|+|+|||..+-
T Consensus         5 ~~~~~~il~~~tGsGKT~~~~   25 (140)
T d1yksa1           5 KKGMTTVLDFHPGAGKTRRFL   25 (140)
T ss_dssp             STTCEEEECCCTTSSTTTTHH
T ss_pred             HcCCcEEEEcCCCCChhHHHH
Confidence            345789999999999996653

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.30  E-value=0.0015  Score=58.90  Aligned_cols=40  Identities=15%  Similarity=0.237  Sum_probs=32.1

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEcccccc
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVREC----GAHLTVISPHSVH   90 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l----~~~~~~v~~~~~~   90 (611)
                      ..+.-|.|+|.||+||||+++.+++.+    +.+.+.++...+.
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~iR   65 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIR   65 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHHH
Confidence            355789999999999999999998765    5677777766543

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.25  E-value=0.0034  Score=58.60  Aligned_cols=78  Identities=28%  Similarity=0.440  Sum_probs=49.5

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccccccc----------------ccccchHHHHHHHHHHHH
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHK----------------AHVGESEKALREAFSQAS  109 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~~----------------~~~~~~~~~l~~~f~~~~  109 (611)
                      |++...-..|+||||+|||+++-.++...   +...++++...-..                .....    ..+.++.+.
T Consensus        50 Gi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~a~~~Gvd~d~v~~~~~~~----~E~~~~~i~  125 (263)
T d1u94a1          50 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDT----GEQALEICD  125 (263)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSS----HHHHHHHHH
T ss_pred             CccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHHHHHHhCCCHHHEEEecCCC----HHHHHHHHH
Confidence            56677889999999999999999876554   56667776543211                01111    222233332


Q ss_pred             hhhhcCCCeEEEEccccccCC
Q 007255          110 SHALSGKPSVVFIDEIDALCP  130 (611)
Q Consensus       110 ~~~~~~~~~il~IDeid~l~~  130 (611)
                      .......+.+++||-+..+.+
T Consensus       126 ~l~~~~~~~liViDSi~al~~  146 (263)
T d1u94a1         126 ALARSGAVDVIVVDSVAALTP  146 (263)
T ss_dssp             HHHHHTCCSEEEEECGGGCCC
T ss_pred             HHHhcCCCCEEEEECcccccc
Confidence            222334578999999988875

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=96.24  E-value=0.0016  Score=57.33  Aligned_cols=35  Identities=17%  Similarity=0.286  Sum_probs=29.8

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      |.+..+.++|||||+||||++|.+++..++..++.
T Consensus        49 ~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~vis   83 (205)
T d1tuea_          49 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVIS   83 (205)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECC
T ss_pred             CCCCceEEEEECCCCccHHHHHHHHHHHhCCEEEe
Confidence            56667789999999999999999999998766543

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.21  E-value=0.0016  Score=58.32  Aligned_cols=27  Identities=33%  Similarity=0.359  Sum_probs=22.7

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      ++..-+.|.||.|+|||++.+.++..+
T Consensus        25 ~~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          25 EKGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             ETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhccc
Confidence            444557799999999999999999755

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.20  E-value=0.00097  Score=58.89  Aligned_cols=25  Identities=24%  Similarity=0.336  Sum_probs=22.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCC
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGA   79 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~   79 (611)
                      -++|.|+||+||||+++.+++.++.
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~   27 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4788999999999999999999854

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.18  E-value=0.0085  Score=55.83  Aligned_cols=82  Identities=27%  Similarity=0.380  Sum_probs=51.2

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHH---hCCcEEEEcccccccc-c-----------ccchHHHHHHHHHHHHhhhh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE---CGAHLTVISPHSVHKA-H-----------VGESEKALREAFSQASSHAL  113 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~---l~~~~~~v~~~~~~~~-~-----------~~~~~~~l~~~f~~~~~~~~  113 (611)
                      |++...-..|+||||||||+++-.++..   .+...++++...-.+. +           .-.......++++.+.....
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~~  135 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIR  135 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHHh
Confidence            6777788999999999999998766544   3667777765532110 0           00000112333333333333


Q ss_pred             cCCCeEEEEccccccCC
Q 007255          114 SGKPSVVFIDEIDALCP  130 (611)
Q Consensus       114 ~~~~~il~IDeid~l~~  130 (611)
                      .+.+.+++||-+..+.+
T Consensus       136 ~~~~~liIiDSi~al~~  152 (269)
T d1mo6a1         136 SGALDIVVIDSVAALVP  152 (269)
T ss_dssp             TTCEEEEEEECSTTCCC
T ss_pred             cCCCCEEEEeccccccc
Confidence            45678999999988886

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.16  E-value=0.0015  Score=58.92  Aligned_cols=41  Identities=22%  Similarity=0.235  Sum_probs=33.4

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh----CCcEEeecchhhcc
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELYS  362 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~~~~~~~  362 (611)
                      ..+.-+.|+|.||+|||++|++++..+    +.+++.+++.++..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~iR~   66 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIRF   66 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHHHH
Confidence            334568899999999999999999765    67888888877654

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=96.16  E-value=0.001  Score=57.49  Aligned_cols=29  Identities=24%  Similarity=0.037  Sum_probs=23.7

Q ss_pred             cceeCCCCCChHHHHHHHHHHh---CCcEEee
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAA---EASFFSL  355 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~  355 (611)
                      +.|+|+||+|||||++.++.++   |..+..+
T Consensus         5 i~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~   36 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIPALCARGIRPGLI   36 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEe
Confidence            7899999999999999999876   4444433

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.11  E-value=0.0042  Score=57.04  Aligned_cols=28  Identities=21%  Similarity=0.182  Sum_probs=24.1

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHH
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      |+++.+-++|+||||||||+++..+|..
T Consensus        30 Gi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          30 GVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            5677778999999999999999988754

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.04  E-value=0.0031  Score=55.77  Aligned_cols=26  Identities=23%  Similarity=0.208  Sum_probs=22.4

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      |.-|-+.||+|+||||+|+.+++.++
T Consensus        22 ~~iIgI~G~~GSGKSTla~~L~~~l~   47 (198)
T d1rz3a_          22 RLVLGIDGLSRSGKTTLANQLSQTLR   47 (198)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            34567999999999999999998774

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.04  E-value=0.0022  Score=56.20  Aligned_cols=29  Identities=17%  Similarity=0.468  Sum_probs=24.7

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      +.|+|+||+|+|||++++.++++....+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~~~~~   32 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHPDRFA   32 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTTTEE
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCcCee
Confidence            57999999999999999999987654443

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=96.02  E-value=0.0067  Score=56.65  Aligned_cols=57  Identities=21%  Similarity=0.267  Sum_probs=37.9

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCcEEeecchhhccccccchHHHHHHHHHHHHhcCCcEEEEcccc
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEAD  393 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~a~~~~p~il~iDeid  393 (611)
                      +..+.++|+|||+||||+++.+++..+|... .++.+.  +.            |..+......++++||..
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~~lg~~~-~~~~~~--~~------------f~l~~l~~k~~~~~~e~~  158 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAHTVPFYG-CVNWTN--EN------------FPFNDCVDKMVIWWEEGK  158 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHSSCEE-ECCTTC--SS------------CTTGGGSSCSEEEECSCC
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHHHhcchh-hccccC--CC------------ccccccCCCEEEEEeCCC
Confidence            4456788999999999999999999986543 222111  11            222333344599999975

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.00  E-value=0.0018  Score=57.10  Aligned_cols=24  Identities=21%  Similarity=0.430  Sum_probs=21.6

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCC
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEA  350 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~  350 (611)
                      ++|.|+||+||||+++.+|..++.
T Consensus         4 ivi~G~~GsGKTT~~~~La~~L~~   27 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            678999999999999999998843

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.99  E-value=0.0022  Score=56.93  Aligned_cols=28  Identities=32%  Similarity=0.444  Sum_probs=24.3

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEE
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFF  353 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~  353 (611)
                      .++|+||+|+|||++++.++...+..+.
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~~   29 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIFG   29 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCcee
Confidence            4889999999999999999998865543

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=95.95  E-value=0.0056  Score=56.24  Aligned_cols=28  Identities=21%  Similarity=0.245  Sum_probs=23.1

Q ss_pred             CCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          321 ISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       321 ~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +++..-+-+.||+|+||||+++.++...
T Consensus        25 i~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          25 AQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             ECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3455567899999999999999998655

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=95.94  E-value=0.0032  Score=57.77  Aligned_cols=27  Identities=26%  Similarity=0.172  Sum_probs=22.3

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .+..-+-|.||.|+|||++.++++...
T Consensus        26 ~~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          26 EEGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            444456699999999999999999665

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.90  E-value=0.0023  Score=56.53  Aligned_cols=28  Identities=36%  Similarity=0.507  Sum_probs=24.0

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcE
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASF  352 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~  352 (611)
                      +.++|+||+|+|||++++.++.+....+
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~   29 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCcce
Confidence            3589999999999999999999875444

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.89  E-value=0.0025  Score=56.03  Aligned_cols=25  Identities=32%  Similarity=0.578  Sum_probs=22.7

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +-|+|+||+|+||||+++.++++..
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            5689999999999999999998874

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.87  E-value=0.041  Score=49.93  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=20.2

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      +.+++.||..+|||+++|.++-.
T Consensus        42 ~~~iiTGpN~~GKSt~lk~i~l~   64 (234)
T d1wb9a2          42 RMLIITGPNMGGKSTYMRQTALI   64 (234)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEeccCchhhHHHHHHHHHH
Confidence            57899999999999999988643

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=95.86  E-value=0.032  Score=51.92  Aligned_cols=29  Identities=21%  Similarity=0.200  Sum_probs=23.3

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      |+.+..-.+|+|+||+|||+++-.+|..+
T Consensus        25 G~~pg~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          25 NMVAGTVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CccCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            33345678899999999999999887653

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=95.84  E-value=0.0043  Score=57.02  Aligned_cols=27  Identities=30%  Similarity=0.182  Sum_probs=22.2

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      ++..-+-|.||.|+||||+.++++...
T Consensus        30 ~~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          30 PRGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            344457799999999999999999654

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=95.83  E-value=0.021  Score=53.45  Aligned_cols=40  Identities=20%  Similarity=0.329  Sum_probs=31.2

Q ss_pred             cCCCCCceEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEccc
Q 007255           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC----GAHLTVISPH   87 (611)
Q Consensus        48 ~g~~~~~~iLl~Gp~GtGKT~la~~la~~l----~~~~~~v~~~   87 (611)
                      .|+.+..-++|.|+||+|||+++..+|..+    +.++..++..
T Consensus        30 ~G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E   73 (277)
T d1cr2a_          30 LGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLE   73 (277)
T ss_dssp             CSBCTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESS
T ss_pred             cCCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeec
Confidence            367777889999999999999998887542    6677776643

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=95.73  E-value=0.014  Score=52.84  Aligned_cols=103  Identities=16%  Similarity=0.104  Sum_probs=53.5

Q ss_pred             CcceeCCCCCChHHHHHHHHHHh-----CCc----E----------EeecchhhccccccchHHHHHHHHHHHHh-cCCc
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAA-----EAS----F----------FSLSGAELYSMYVGESEALLRNTFQRARL-AAPS  385 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~-----~~~----~----------~~~~~~~~~~~~~g~~~~~~~~~~~~a~~-~~p~  385 (611)
                      .++++||...|||++.+.+|-..     |+.    .          ..+...+-...-...+...++.+-...+. ...+
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~I~~~~~~~d~~~~~~StF~~el~~~~~il~~~~~~s  116 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALILKEATENS  116 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSEEEEECCC------CCSHHHHHHHHHHHHHHHCCTTE
T ss_pred             EEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecceEEEEECCCccccCCccHHHHhHHHHHHHhccCCCCc
Confidence            47999999999999999888544     322    1          12222221111111122223333333322 3567


Q ss_pred             EEEEcccccccccCCCCCCCCcchhHHHHHHHHHHhcCCCCCCCeEEEEecCCCcc
Q 007255          386 IIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKGILVLAATNRPHA  441 (611)
Q Consensus       386 il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~  441 (611)
                      +++|||+-+         +........+..+++..|-   .. +..++.+|...+.
T Consensus       117 LvliDE~~~---------gT~~~eg~ala~aile~L~---~~-~~~~i~tTH~~eL  159 (224)
T d1ewqa2         117 LVLLDEVGR---------GTSSLDGVAIATAVAEALH---ER-RAYTLFATHYFEL  159 (224)
T ss_dssp             EEEEESTTT---------TSCHHHHHHHHHHHHHHHH---HH-TCEEEEECCCHHH
T ss_pred             EEeeccccc---------CcchhhhcchHHHHHHHHh---hc-CcceEEeeechhh
Confidence            999999842         1222333445556666653   22 3456667877653

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=95.71  E-value=0.01  Score=50.24  Aligned_cols=30  Identities=30%  Similarity=0.449  Sum_probs=26.1

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCc
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAH   80 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~   80 (611)
                      +++--|+|.|+=|+|||+++|.+++.+|..
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            344568999999999999999999999864

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.69  E-value=0.013  Score=54.97  Aligned_cols=28  Identities=21%  Similarity=0.172  Sum_probs=23.6

Q ss_pred             CCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          321 ISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       321 ~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +.+..-+-+.||+|+|||+++++++..+
T Consensus        59 i~~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          59 IEKGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            4555568899999999999999999766

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.69  E-value=0.014  Score=52.12  Aligned_cols=33  Identities=24%  Similarity=0.398  Sum_probs=27.4

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~   86 (611)
                      .+.++.+|+|+|||.++-.++.+++.+.+.+.+
T Consensus        86 ~~~ll~~~tG~GKT~~a~~~~~~~~~~~Liv~p  118 (206)
T d2fz4a1          86 KRGCIVLPTGSGKTHVAMAAINELSTPTLIVVP  118 (206)
T ss_dssp             SEEEEEESSSTTHHHHHHHHHHHSCSCEEEEES
T ss_pred             CCcEEEeCCCCCceehHHhHHHHhcCceeEEEc
Confidence            456788999999999999999999877666654

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=95.46  E-value=0.02  Score=53.46  Aligned_cols=29  Identities=24%  Similarity=0.211  Sum_probs=22.9

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      |+.+..-.+|+|+||+|||+++..+|..+
T Consensus        25 G~~pg~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          25 NMVAGTVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CccCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            33445557899999999999999888654

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.43  E-value=0.0026  Score=57.27  Aligned_cols=29  Identities=21%  Similarity=0.176  Sum_probs=25.2

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      |+++..-++++||||+|||++|..+|...
T Consensus        19 Gi~~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          19 GIETGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcCCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            56777788999999999999999998765

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.38  E-value=0.0039  Score=56.06  Aligned_cols=29  Identities=24%  Similarity=0.417  Sum_probs=25.9

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      |+.+..-++++||||+|||+++..+|...
T Consensus        19 Gi~~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          19 GIETGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcCCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            67778899999999999999999998765

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.31  E-value=0.0051  Score=55.36  Aligned_cols=27  Identities=26%  Similarity=0.369  Sum_probs=23.5

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGA   79 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~   79 (611)
                      |--|-+.||+|+||||+++.+++.++.
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            345679999999999999999999864

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.29  E-value=0.0096  Score=53.03  Aligned_cols=18  Identities=39%  Similarity=0.495  Sum_probs=15.9

Q ss_pred             CCcceeCCCCCChHHHHH
Q 007255          325 RGALLHGPPGCSKTTLAK  342 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~  342 (611)
                      +++++.+|+|+|||.++.
T Consensus        41 ~~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          41 KNLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             SCEEEECSSHHHHHHHHH
T ss_pred             CCEEEEcCCCCchhHHHH
Confidence            578999999999998874

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=95.28  E-value=0.01  Score=54.13  Aligned_cols=26  Identities=31%  Similarity=0.271  Sum_probs=21.5

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHH
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +...-+-|.||.|+|||++.++++..
T Consensus        23 ~~Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          23 RAGEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             ETTCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            34455779999999999999999864

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.27  E-value=0.003  Score=58.02  Aligned_cols=28  Identities=25%  Similarity=0.300  Sum_probs=24.7

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHH
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      |+++..-++|+||||||||+++-.++..
T Consensus        30 Gi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          30 GVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            6778889999999999999999888654

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.26  E-value=0.0079  Score=51.65  Aligned_cols=22  Identities=32%  Similarity=0.144  Sum_probs=20.0

Q ss_pred             cceeCCCCCChHHHHHHHHHHh
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +-+.|++|+|||||+..++.++
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999876

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.24  E-value=0.0056  Score=52.66  Aligned_cols=23  Identities=26%  Similarity=0.265  Sum_probs=20.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHh
Q 007255           55 GLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      -+-++|++||||||++..+++++
T Consensus         3 ii~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            45699999999999999999876

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.20  E-value=0.004  Score=57.53  Aligned_cols=29  Identities=24%  Similarity=0.205  Sum_probs=25.3

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      |+++..-++++||||||||++|..+|...
T Consensus        33 Gip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          33 GIESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            67777789999999999999999998754

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.19  E-value=0.12  Score=47.37  Aligned_cols=41  Identities=20%  Similarity=0.167  Sum_probs=29.4

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcc
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS  362 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~  362 (611)
                      ..+...||+|..|+|||.+|-..+...   |.....+-+..++.
T Consensus       102 ~~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~Pt~~La  145 (264)
T d1gm5a3         102 EKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTSILA  145 (264)
T ss_dssp             SSCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECSCHHHH
T ss_pred             cCcceeeeeccccccccHHHHHHHHHHHhcccceeEEeehHhhh
Confidence            444568999999999999888666443   66666666654443

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.17  E-value=0.02  Score=53.53  Aligned_cols=42  Identities=21%  Similarity=0.276  Sum_probs=30.2

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh------CCcEEEEcccccc
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC------GAHLTVISPHSVH   90 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l------~~~~~~v~~~~~~   90 (611)
                      +.+.|--|-|.|++||||||++..+...+      ...+..++..++.
T Consensus        23 ~~~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY   70 (286)
T d1odfa_          23 GNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFY   70 (286)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGB
T ss_pred             CCCCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCC
Confidence            34455667789999999999999887665      3345666665653

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.16  E-value=0.0027  Score=56.17  Aligned_cols=23  Identities=26%  Similarity=0.261  Sum_probs=20.3

Q ss_pred             cceeCCCCCChHHHHHHHHHHhC
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAE  349 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~  349 (611)
                      +-+.||+|+|||++|+.|+..++
T Consensus        25 IgI~G~~GSGKSTla~~L~~~l~   47 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLANQLSQTLR   47 (198)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            44899999999999999998774

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.16  E-value=0.011  Score=54.80  Aligned_cols=27  Identities=26%  Similarity=0.313  Sum_probs=22.1

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .+..-+-|.||.|+|||+++++++...
T Consensus        28 ~~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          28 NKGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            344457799999999999999999654

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.16  E-value=0.014  Score=52.15  Aligned_cols=32  Identities=22%  Similarity=0.208  Sum_probs=26.8

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeecc
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~  357 (611)
                      ..++.+|+|+|||.++-+++.+++.+.+.+-+
T Consensus        87 ~~ll~~~tG~GKT~~a~~~~~~~~~~~Liv~p  118 (206)
T d2fz4a1          87 RGCIVLPTGSGKTHVAMAAINELSTPTLIVVP  118 (206)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEEES
T ss_pred             CcEEEeCCCCCceehHHhHHHHhcCceeEEEc
Confidence            35788999999999999999999877766655

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.13  E-value=0.0099  Score=53.14  Aligned_cols=25  Identities=28%  Similarity=0.541  Sum_probs=22.6

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +-++|+||+|+|||+|.+.+++...
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            4689999999999999999999875

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.09  E-value=0.0065  Score=56.03  Aligned_cols=29  Identities=24%  Similarity=0.235  Sum_probs=25.8

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      |+++..-++|+||||+|||+++..+|...
T Consensus        33 Gip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          33 GIESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            67788899999999999999999998753

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.05  E-value=0.0049  Score=56.90  Aligned_cols=29  Identities=24%  Similarity=0.354  Sum_probs=25.6

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      |++...-++|+||||+|||+++-.+|...
T Consensus        32 Glp~G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          32 GIETQAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CccCCEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            57777889999999999999999888654

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.02  E-value=0.0033  Score=58.14  Aligned_cols=29  Identities=31%  Similarity=0.290  Sum_probs=25.0

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      |+++.+-++++||||+|||+++..+|...
T Consensus        32 Glp~G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          32 GIETQAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CccCCEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            56777778999999999999999888654

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=94.98  E-value=0.018  Score=54.60  Aligned_cols=41  Identities=15%  Similarity=0.229  Sum_probs=32.2

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhC-----CcEEEEcccccc
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG-----AHLTVISPHSVH   90 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~-----~~~~~v~~~~~~   90 (611)
                      .+.|.-|-+.|++|+||||+++.+...+.     ..+..++..++.
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~  122 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFL  122 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeE
Confidence            34567788999999999999999999874     456666666654

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.94  E-value=0.0063  Score=53.30  Aligned_cols=25  Identities=24%  Similarity=0.422  Sum_probs=21.9

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhC
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAE  349 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~  349 (611)
                      +-++|.||+|+|||++++.+..+..
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            3478999999999999999998864

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=94.91  E-value=0.01  Score=52.17  Aligned_cols=30  Identities=23%  Similarity=0.366  Sum_probs=24.4

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      .|.-|-++|++|+||||+|+.+ ++.|.+++
T Consensus         2 ~p~IIgitG~~gSGKstva~~l-~~~g~~~~   31 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALL-RSWGYPVL   31 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHH-HHTTCCEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHH-HHCCCeEE
Confidence            3556779999999999999988 56787654

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=94.86  E-value=0.01  Score=54.29  Aligned_cols=34  Identities=15%  Similarity=0.145  Sum_probs=23.9

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG  357 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~  357 (611)
                      ++++++.+|+|+|||.++-..+...   +...+.+.+
T Consensus        58 g~~~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~P   94 (237)
T d1gkub1          58 KESFAATAPTGVGKTSFGLAMSLFLALKGKRCYVIFP   94 (237)
T ss_dssp             TCCEECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEES
T ss_pred             CCCEEEEecCCChHHHHHHHHHHHHHHhcCeEEEEec
Confidence            3579999999999998766555433   445555554

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=94.84  E-value=0.0076  Score=50.97  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .|+|+|+||+|||+|++.+...
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998754

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=94.79  E-value=0.11  Score=46.69  Aligned_cols=21  Identities=29%  Similarity=0.504  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      .++|.||...|||+++|.++-
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhHH
Confidence            589999999999999998754

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.77  E-value=0.0068  Score=53.65  Aligned_cols=33  Identities=21%  Similarity=0.256  Sum_probs=28.0

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~   83 (611)
                      ..|.-|.+.|+.|+||||+++.+++.++...+.
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l~~~~~~   39 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYKNDICLL   39 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGTTTEEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHhCCcEEE
Confidence            356789999999999999999999999765443

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=94.65  E-value=0.043  Score=48.52  Aligned_cols=20  Identities=40%  Similarity=0.467  Sum_probs=17.0

Q ss_pred             CCceEEEEcCCCCcHHHHHH
Q 007255           52 WPRGLLLYGPPGTGKTSLVR   71 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~   71 (611)
                      ...++++++|+|+|||+++.
T Consensus        39 ~~~~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          39 SGKNLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             TCSCEEEECSSHHHHHHHHH
T ss_pred             cCCCEEEEcCCCCchhHHHH
Confidence            34689999999999998864

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=94.64  E-value=0.039  Score=46.57  Aligned_cols=21  Identities=29%  Similarity=0.476  Sum_probs=18.8

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      ++|.|+||+|||+|..++...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999743

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=94.55  E-value=0.13  Score=46.30  Aligned_cols=41  Identities=27%  Similarity=0.233  Sum_probs=30.0

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhcc
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS  362 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~~  362 (611)
                      +.+...||+|.+|+|||.++-..+...   |...+.+-|...+.
T Consensus        74 ~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt~~La  117 (233)
T d2eyqa3          74 PLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTLLA  117 (233)
T ss_dssp             SSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSSHHHH
T ss_pred             cCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccHHHhH
Confidence            334568999999999999988766554   67777777655443

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.55  E-value=0.03  Score=48.38  Aligned_cols=22  Identities=23%  Similarity=0.240  Sum_probs=19.6

Q ss_pred             CcceeCCCCCChHHHHHHHHHH
Q 007255          326 GALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      -+.|.|.||+|||+|..++...
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999999854

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=94.52  E-value=0.014  Score=50.28  Aligned_cols=29  Identities=31%  Similarity=0.546  Sum_probs=24.2

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      ..++||.|++|+|||+++-.+.+. |..++
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~-g~~lv   42 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR-GHRLI   42 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT-TCEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEE
Confidence            479999999999999999888765 66544

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.46  E-value=0.29  Score=41.67  Aligned_cols=23  Identities=22%  Similarity=0.427  Sum_probs=20.6

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      ..|.|+|.+|+|||++++++...
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46999999999999999999754

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=94.44  E-value=0.011  Score=50.03  Aligned_cols=31  Identities=23%  Similarity=0.202  Sum_probs=25.9

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhCCcE
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASF  352 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~~~~  352 (611)
                      +++--++|.|+=|+|||++++++++.+|..-
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~~   61 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQG   61 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCCS
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhccccc
Confidence            3434478999999999999999999998753

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.39  E-value=0.061  Score=47.70  Aligned_cols=51  Identities=22%  Similarity=0.194  Sum_probs=29.3

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcC---CCCCCCcceeCCCCCChHHHH
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLG---ISPVRGALLHGPPGCSKTTLA  341 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~---~~~~~~~Ll~Gp~G~GKT~la  341 (611)
                      +|+++.-.+.+.+.|.+. .  +.++....+..   +-..+.+++.+|+|+|||+..
T Consensus         2 sF~~l~L~~~l~~~L~~~-g--~~~pt~iQ~~aip~il~g~dvi~~a~tGsGKTlay   55 (206)
T d1s2ma1           2 TFEDFYLKRELLMGIFEA-G--FEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAF   55 (206)
T ss_dssp             CGGGGCCCHHHHHHHHHT-T--CCSCCHHHHHHHHHHHHTCCEEEECCTTSCHHHHH
T ss_pred             ChHHcCCCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHcCCCEEEecCCcchhhhhh
Confidence            577776666677666653 1  22221111111   112367999999999999543

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=94.34  E-value=0.01  Score=51.22  Aligned_cols=29  Identities=21%  Similarity=0.292  Sum_probs=24.0

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEE
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~  353 (611)
                      .+++||.||+|+|||++|.++... |..++
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~-g~~lv   42 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR-GHRLI   42 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT-TCEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEE
Confidence            468999999999999999988864 66554

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.29  E-value=0.0092  Score=53.59  Aligned_cols=25  Identities=8%  Similarity=0.111  Sum_probs=21.9

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCc
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEAS  351 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~  351 (611)
                      +-+.||+|+||||+|+.++..++..
T Consensus         5 IgI~G~~gSGKSTla~~L~~~l~~~   29 (213)
T d1uj2a_           5 IGVSGGTASGKSSVCAKIVQLLGQN   29 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhchh
Confidence            4588999999999999999998654

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.25  E-value=0.027  Score=50.31  Aligned_cols=60  Identities=8%  Similarity=0.106  Sum_probs=33.6

Q ss_pred             cccccccchhHHHHHHHHH-hhccCCCh-hHHhhcCCCCCCCcceeCCCCCChHHHHHHHHHH
Q 007255          287 VTWEDIGGLRDLKKKLQQA-VEWPIKHS-TAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~-~~~~~~~~-~~~~~~~~~~~~~~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      ++|+++.-.+.+.+.|.+. +..|..-+ ..+.. .+.....+++..|+|+|||..+-..+.+
T Consensus         4 msf~~l~l~~~l~~~l~~~g~~~pt~iQ~~~ip~-~l~g~~d~iv~a~TGsGKT~~~~l~~~~   65 (208)
T d1hv8a1           4 MNFNELNLSDNILNAIRNKGFEKPTDIQMKVIPL-FLNDEYNIVAQARTGSGKTASFAIPLIE   65 (208)
T ss_dssp             CCGGGSSCCHHHHHHHHHHTCCSCCHHHHHHHHH-HHHTCSEEEEECCSSSSHHHHHHHHHHH
T ss_pred             cCHHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHH-HHcCCCCeeeechhcccccceeeccccc
Confidence            5788876566666666553 11111111 11110 0112246899999999999977655543

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=94.20  E-value=0.077  Score=44.57  Aligned_cols=21  Identities=33%  Similarity=0.640  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      .|+|.|+||+|||+|++++..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999974

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.09  E-value=0.012  Score=53.36  Aligned_cols=29  Identities=24%  Similarity=0.413  Sum_probs=24.1

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +.+...+.|.||+|+||||+++.++....
T Consensus        23 i~~Gei~~liGpsGsGKSTLl~~i~Gl~~   51 (232)
T d2awna2          23 IHEGEFVVFVGPSGCGKSTLLRMIAGLET   51 (232)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            44567899999999999999999977543

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=94.07  E-value=0.017  Score=49.07  Aligned_cols=24  Identities=25%  Similarity=0.427  Sum_probs=21.0

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHH
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      ...|+|+|+||+|||+|++.+...
T Consensus         5 e~kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           5 EMRILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCC
Confidence            356999999999999999998764

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.03  E-value=0.055  Score=47.88  Aligned_cols=23  Identities=26%  Similarity=0.186  Sum_probs=20.4

Q ss_pred             CCcceeCCCCCChHHHHHHHHHH
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      ++++|.|+||+|||+|..++...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999863

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.01  E-value=0.015  Score=51.82  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=20.7

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      ++|+|.|+||+|||+|++.+...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            47999999999999999999763

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.01  E-value=0.011  Score=53.63  Aligned_cols=28  Identities=21%  Similarity=0.344  Sum_probs=23.5

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      +.....+-|.||+|+||||+++.++...
T Consensus        28 i~~Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          28 IKEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCcchhhHhccCCC
Confidence            4566789999999999999999887643

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=94.00  E-value=0.05  Score=44.91  Aligned_cols=31  Identities=19%  Similarity=0.338  Sum_probs=22.6

Q ss_pred             ceeCCCCCChHH-HHHHHH--HHhCCcEEeecch
Q 007255          328 LLHGPPGCSKTT-LAKAAA--HAAEASFFSLSGA  358 (611)
Q Consensus       328 Ll~Gp~G~GKT~-la~ala--~~~~~~~~~~~~~  358 (611)
                      +++||-.+|||+ |.+.+-  ...+.+++.++++
T Consensus         6 ~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ikp~   39 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRLHRLEYADVKYLVFKPK   39 (139)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             EEEccccCHHHHHHHHHHHHHHHCCCcEEEEEEc
Confidence            689999999999 666653  3347777766664

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=93.99  E-value=0.015  Score=53.08  Aligned_cols=31  Identities=23%  Similarity=0.346  Sum_probs=24.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhC--CcEEEEc
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECG--AHLTVIS   85 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~--~~~~~v~   85 (611)
                      -+++.||+|+||||+++.+.+.+.  .....++
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~~~~~~ivn   34 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVN   34 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTTTSCEEEEE
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhCCeEEEEe
Confidence            378999999999999999987663  3444443

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=93.96  E-value=0.013  Score=53.67  Aligned_cols=29  Identities=24%  Similarity=0.269  Sum_probs=25.8

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      |+.+..-++|.||||+|||+++..+|..+
T Consensus        30 Gl~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          30 GLESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            46777889999999999999999998765

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.96  E-value=0.015  Score=49.14  Aligned_cols=22  Identities=32%  Similarity=0.548  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -|+|+|+||+|||+|+..+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999998764

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.96  E-value=0.015  Score=50.57  Aligned_cols=26  Identities=12%  Similarity=0.243  Sum_probs=22.2

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCC
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEA  350 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~  350 (611)
                      +.++|.||+|+|||+|++.+......
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~~   29 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHPD   29 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCc
Confidence            45899999999999999999977533

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.94  E-value=0.02  Score=52.25  Aligned_cols=30  Identities=23%  Similarity=0.403  Sum_probs=26.8

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      |+-|.+.|+-|+||||+++.+++.++...+
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~~~~i   31 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYPEWHV   31 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCTTSEE
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhhcCC
Confidence            678999999999999999999999976554

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=93.79  E-value=0.016  Score=54.87  Aligned_cols=19  Identities=26%  Similarity=0.455  Sum_probs=16.0

Q ss_pred             CceEEEEcCCCCcHHHHHH
Q 007255           53 PRGLLLYGPPGTGKTSLVR   71 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~   71 (611)
                      ..++++.|+||||||+++-
T Consensus        14 ~~~~lI~g~aGTGKTt~l~   32 (306)
T d1uaaa1          14 TGPCLVLAGAGSGKTRVIT   32 (306)
T ss_dssp             SSEEEECCCTTSCHHHHHH
T ss_pred             CCCEEEEeeCCccHHHHHH
Confidence            4679999999999998653

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.76  E-value=0.13  Score=46.02  Aligned_cols=62  Identities=18%  Similarity=0.148  Sum_probs=34.5

Q ss_pred             cccccccccccccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCC---CCceEEEEcCCCCcHHHHHH
Q 007255            7 IMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLK---WPRGLLLYGPPGTGKTSLVR   71 (611)
Q Consensus         7 ~~~~~~~~~~~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~---~~~~iLl~Gp~GtGKT~la~   71 (611)
                      |.+..++.-..|+++.=.+...+.|.+.   .+..+....+..++   ..+++++..|+|||||...-
T Consensus         3 ~~~~~~e~i~sF~~l~L~~~l~~~L~~~---g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlayl   67 (218)
T d2g9na1           3 IESNWNEIVDSFDDMNLSESLLRGIYAY---GFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFA   67 (218)
T ss_dssp             CCCCCCCCCCCGGGSCCCHHHHHHHHHH---TCCSCCHHHHHHHHHHHHTCCEEEECCTTSSHHHHHH
T ss_pred             CCCCCCCccCCHHHCCCCHHHHHHHHHC---CCCCCCHHHHHHHHHHHcCCCEEEEcccchhhhhhhh
Confidence            3344444335667776555666666432   12222222211111   23789999999999998764

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=93.73  E-value=0.024  Score=48.50  Aligned_cols=28  Identities=29%  Similarity=0.578  Sum_probs=23.1

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~   81 (611)
                      ..++||.|++|+|||+++-.+.+. |..+
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~-g~~l   42 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR-GHRL   42 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeE
Confidence            479999999999999999887766 5443

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=93.71  E-value=0.021  Score=49.24  Aligned_cols=29  Identities=24%  Similarity=0.423  Sum_probs=23.6

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      ..++||.||+|+|||+++-.+.+. |..++
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~-G~~lv   43 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK-NHLFV   43 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT-TCEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCcee
Confidence            478999999999999999888754 55443

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=93.70  E-value=0.0095  Score=54.55  Aligned_cols=29  Identities=17%  Similarity=0.213  Sum_probs=25.0

Q ss_pred             CCCCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       320 ~~~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      |+++..-++|+||||+|||+++..+|...
T Consensus        30 Gl~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          30 GLESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            46666778999999999999999999765

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=93.66  E-value=0.045  Score=52.38  Aligned_cols=68  Identities=13%  Similarity=0.185  Sum_probs=42.2

Q ss_pred             CcceeCCCCCChHHHHHHHHHHh---C--CcEEeecchhhcc----------------------------ccccchHHHH
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAA---E--ASFFSLSGAELYS----------------------------MYVGESEALL  372 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~---~--~~~~~~~~~~~~~----------------------------~~~g~~~~~~  372 (611)
                      -+=+.||||+|||+|..+++..+   |  ..++.++++.-.+                            ...|......
T Consensus        56 ~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgdr~rm~~~~~~~~~~ir~~~~~g~lgg~~~~~  135 (327)
T d2p67a1          56 RLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTRMNDLARAEAAFIRPVPSSGHLGGASQRA  135 (327)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC---------------CTTTTCTTEEEEEECC-----CHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeeccccccchhHHHHhcccccccccccccccccccchhhh
Confidence            46789999999999999998765   2  3345555432211                            0223334455


Q ss_pred             HHHHHHHHhcCCcEEEEcccc
Q 007255          373 RNTFQRARLAAPSIIFFDEAD  393 (611)
Q Consensus       373 ~~~~~~a~~~~p~il~iDeid  393 (611)
                      ............+++||+-+.
T Consensus       136 ~~~~~~~~~~g~d~iliEtvG  156 (327)
T d2p67a1         136 RELMLLCEAAGYDVVIVETVG  156 (327)
T ss_dssp             HHHHHHHHHTTCSEEEEEEEC
T ss_pred             hHHHHHHHhcCCCeEEEeecc
Confidence            566666666677888888764

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.62  E-value=0.018  Score=49.60  Aligned_cols=22  Identities=23%  Similarity=0.489  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -++++|++|+|||++++.+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4889999999999999998754

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.59  E-value=0.023  Score=50.42  Aligned_cols=24  Identities=29%  Similarity=0.620  Sum_probs=21.5

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHH
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      ...|+|+|+||+|||+|+.++...
T Consensus         3 ~p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           3 QPSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999865

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.53  E-value=0.024  Score=50.68  Aligned_cols=31  Identities=23%  Similarity=0.355  Sum_probs=25.0

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVREC---GAHLTVI   84 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v   84 (611)
                      .-|.|.|+.|+||||+++.+++.+   |.+++.+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~   37 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELL   37 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            457788999999999999999877   5555544

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=93.51  E-value=0.019  Score=48.96  Aligned_cols=22  Identities=27%  Similarity=0.452  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~   75 (611)
                      ..|++.|++|+|||+|++.+..
T Consensus         3 ~ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           3 LRLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHcC
Confidence            4689999999999999999865

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.50  E-value=0.63  Score=42.44  Aligned_cols=36  Identities=28%  Similarity=0.482  Sum_probs=26.5

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHH---hCCcEEEEcc
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRE---CGAHLTVISP   86 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~---l~~~~~~v~~   86 (611)
                      ..+.+-||+|..|+|||.++-..+..   .|.....+-+
T Consensus       102 ~~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~P  140 (264)
T d1gm5a3         102 EKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVP  140 (264)
T ss_dssp             SSCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECS
T ss_pred             cCcceeeeeccccccccHHHHHHHHHHHhcccceeEEee
Confidence            46678999999999999998866543   2555555544

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=93.49  E-value=0.018  Score=52.38  Aligned_cols=29  Identities=34%  Similarity=0.447  Sum_probs=24.2

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +.+...+-|.||+|+||||+++.++..+.
T Consensus        29 v~~Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          29 IKDGEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            34557899999999999999999987543

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=93.48  E-value=0.017  Score=49.91  Aligned_cols=24  Identities=25%  Similarity=0.365  Sum_probs=20.6

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHH
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~   75 (611)
                      ...-|+|+|+||+|||+|+..+..
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            346799999999999999998854

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=93.47  E-value=0.017  Score=50.78  Aligned_cols=27  Identities=19%  Similarity=0.177  Sum_probs=22.4

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      +-++|++|+|||++|+.+ .+.|.+++.
T Consensus         6 IgitG~~gSGKstva~~l-~~~g~~~~~   32 (191)
T d1uf9a_           6 IGITGNIGSGKSTVAALL-RSWGYPVLD   32 (191)
T ss_dssp             EEEEECTTSCHHHHHHHH-HHTTCCEEE
T ss_pred             EEEECCCCCCHHHHHHHH-HHCCCeEEE
Confidence            447899999999999998 467887764

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=93.47  E-value=0.012  Score=52.38  Aligned_cols=29  Identities=24%  Similarity=0.384  Sum_probs=23.7

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +++..-+.|.||.|+||||+.+.++..+.
T Consensus        24 i~~Gei~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          24 IEKGNVVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             EETTCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcccc
Confidence            34556788999999999999999977543

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.45  E-value=0.052  Score=50.68  Aligned_cols=38  Identities=21%  Similarity=0.169  Sum_probs=28.1

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh------CCcEEeecchhhc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA------EASFFSLSGAELY  361 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~------~~~~~~~~~~~~~  361 (611)
                      |--+-|.|++||||||++..+...+      +..+..++..+++
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY   70 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFY   70 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGB
T ss_pred             CEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCC
Confidence            3334478999999999999887665      3456667777764

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=93.43  E-value=0.016  Score=52.86  Aligned_cols=27  Identities=33%  Similarity=0.453  Sum_probs=23.1

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      ++...+-|.||+|+||||+++.++...
T Consensus        27 ~~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          27 KDGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            455789999999999999999998654

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.42  E-value=0.16  Score=44.78  Aligned_cols=52  Identities=13%  Similarity=0.107  Sum_probs=29.5

Q ss_pred             ccccccchhHHHHHHHHHhhccCCChhHHhhcC---CCCCCCcceeCCCCCChHHHHH
Q 007255          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLG---ISPVRGALLHGPPGCSKTTLAK  342 (611)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~---~~~~~~~Ll~Gp~G~GKT~la~  342 (611)
                      +|+|+.-.+++.+.|.+. .  +.++....+..   .-..+.+++..|+|+|||...-
T Consensus         2 ~F~dl~L~~~l~~~l~~~-g--~~~pt~iQ~~aip~il~g~dvl~~A~TGsGKTla~~   56 (207)
T d1t6na_           2 GFRDFLLKPELLRAIVDC-G--FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFV   56 (207)
T ss_dssp             CSTTSCCCHHHHHHHHHT-T--CCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHH
T ss_pred             CccccCcCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHcCCCeEEEeccccccccccc
Confidence            466666566666666553 2  22222111111   1124689999999999997543

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=93.41  E-value=0.014  Score=52.85  Aligned_cols=29  Identities=21%  Similarity=0.340  Sum_probs=24.3

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +....-+.|.||+|+||||+++.++..+.
T Consensus        23 i~~Ge~~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2          23 VESGEYFVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             ECTTCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            34556899999999999999999987543

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=93.37  E-value=0.014  Score=50.32  Aligned_cols=29  Identities=28%  Similarity=0.324  Sum_probs=23.4

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEE
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~  353 (611)
                      ..++||.||+|+|||++|..+... |..++
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~-G~~lv   43 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK-NHLFV   43 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT-TCEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCcee
Confidence            468999999999999999888753 55543

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=93.34  E-value=0.025  Score=50.47  Aligned_cols=24  Identities=29%  Similarity=0.432  Sum_probs=22.0

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      +-|.|.|+.|+||||+++.+++.+
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            568899999999999999999877

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=93.33  E-value=0.015  Score=52.97  Aligned_cols=28  Identities=25%  Similarity=0.269  Sum_probs=23.5

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      +.....+-|.||+|+||||+++.++...
T Consensus        28 i~~Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          28 VPAGQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             ECSSCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            3455789999999999999999997643

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=93.32  E-value=0.018  Score=48.49  Aligned_cols=22  Identities=23%  Similarity=0.203  Sum_probs=19.4

Q ss_pred             cceeCCCCCChHHHHHHHHHHh
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +++.|+||+|||+|...+...-
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999987543

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.30  E-value=0.022  Score=48.49  Aligned_cols=21  Identities=19%  Similarity=0.488  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      .|+|+|+||+|||+|+..+..
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999998875

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=93.27  E-value=0.021  Score=50.87  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=21.1

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhC
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAE  349 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~  349 (611)
                      -++|+||+|+|||+|.+.+.....
T Consensus         4 livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCC
Confidence            367899999999999999998764

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=93.26  E-value=0.019  Score=49.26  Aligned_cols=28  Identities=21%  Similarity=0.262  Sum_probs=22.8

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcE
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASF  352 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~  352 (611)
                      ..++||.|++|.|||++|.++... |..+
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~-g~~l   42 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR-GHRL   42 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeE
Confidence            468999999999999999887765 5444

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.26  E-value=0.018  Score=53.15  Aligned_cols=29  Identities=21%  Similarity=0.393  Sum_probs=24.2

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +.+...+.|+||+|+||||+++.++..+.
T Consensus        38 i~~Ge~iaivG~sGsGKSTLl~ll~gl~~   66 (253)
T d3b60a1          38 IPAGKTVALVGRSGSGKSTIASLITRFYD   66 (253)
T ss_dssp             ECTTCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcccC
Confidence            45667899999999999999999976443

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=93.21  E-value=0.015  Score=53.20  Aligned_cols=29  Identities=24%  Similarity=0.332  Sum_probs=24.6

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +.+...+.++||+|+||||+++.++..+.
T Consensus        26 i~~Ge~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          26 IKQGEVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            34667899999999999999999987554

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.21  E-value=0.018  Score=53.10  Aligned_cols=29  Identities=24%  Similarity=0.326  Sum_probs=24.4

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +.+...+.++||+|+||||+++.++..+.
T Consensus        37 i~~Ge~vaivG~sGsGKSTLl~li~gl~~   65 (251)
T d1jj7a_          37 LRPGEVTALVGPNGSGKSTVAALLQNLYQ   65 (251)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcccC
Confidence            45667899999999999999999977543

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.20  E-value=0.021  Score=51.81  Aligned_cols=25  Identities=24%  Similarity=0.444  Sum_probs=20.9

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      .-+.|.||+|+||||+++.++..+.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~   49 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEEECCCCChHHHHHHHHHcCCC
Confidence            3566899999999999999987543

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.19  E-value=0.024  Score=48.63  Aligned_cols=22  Identities=27%  Similarity=0.459  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -++++|++|+|||+|++.+...
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4899999999999999998764

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.17  E-value=0.029  Score=50.11  Aligned_cols=29  Identities=21%  Similarity=0.149  Sum_probs=22.9

Q ss_pred             cceeCCCCCChHHHHHHHHHHh---CCcEEee
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAA---EASFFSL  355 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~  355 (611)
                      +.|.|+.|+||||+++.+++.+   |.+++.+
T Consensus         6 I~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~   37 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVEALCAAGHRAELL   37 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            3455999999999999999877   5555544

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.14  E-value=0.024  Score=48.40  Aligned_cols=22  Identities=27%  Similarity=0.501  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -|+|+|++|+|||+|++.+...
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999999864

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.13  E-value=0.042  Score=49.21  Aligned_cols=33  Identities=18%  Similarity=0.277  Sum_probs=28.1

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~   85 (611)
                      ++-|.|.|+-|+||||+++.+++.+......+.
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L~~~~~~~~   35 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKLQPNCKLLK   35 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHTTTSEEEEE
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHhCCEEEE
Confidence            467899999999999999999999977655543

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.12  E-value=0.025  Score=48.32  Aligned_cols=22  Identities=23%  Similarity=0.504  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -|+|.|++|+|||++++.+...
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998764

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.10  E-value=0.1  Score=46.21  Aligned_cols=52  Identities=15%  Similarity=0.107  Sum_probs=29.4

Q ss_pred             cccccccchhHHHHHHHHHhhccCCChhHHhhcC---CCCCCCcceeCCCCCChHHHH
Q 007255          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLG---ISPVRGALLHGPPGCSKTTLA  341 (611)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~---~~~~~~~Ll~Gp~G~GKT~la  341 (611)
                      .+|+++.-.+++.+.|.+. .  +..+....+..   .-..+.+++..|+|+|||+..
T Consensus         3 ~~F~~l~L~~~l~~~l~~~-g--~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlay   57 (206)
T d1veca_           3 NEFEDYCLKRELLMGIFEM-G--WEKPSPIQEESIPIALSGRDILARAKNGTGKSGAY   57 (206)
T ss_dssp             SSGGGSCCCHHHHHHHHTT-T--CCSCCHHHHHHHHHHHTTCCEEEECCSSSTTHHHH
T ss_pred             CChhccCcCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHcCCCEEeeccCcccccccc
Confidence            3577776566666666543 1  22222111111   112468999999999999644

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=93.08  E-value=0.02  Score=52.34  Aligned_cols=28  Identities=21%  Similarity=0.307  Sum_probs=23.6

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      +.+...+.++||+|+||||+++.++..+
T Consensus        25 i~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          25 AQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             ECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4466789999999999999999997644

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.06  E-value=0.032  Score=50.05  Aligned_cols=28  Identities=25%  Similarity=0.277  Sum_probs=23.2

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhCCc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECGAH   80 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~~~   80 (611)
                      .+..+|.|++|+|||+|+.++.......
T Consensus        95 ~kt~~~~G~SGVGKSTLiN~L~~~~~~~  122 (225)
T d1u0la2          95 GKISTMAGLSGVGKSSLLNAINPGLKLR  122 (225)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHSTTCCCC
T ss_pred             CCeEEEECCCCCCHHHHHHhhcchhhhh
Confidence            4678999999999999999997655444

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.02  E-value=0.021  Score=53.49  Aligned_cols=29  Identities=31%  Similarity=0.430  Sum_probs=24.2

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +.+...+.|+||+|+||||+++.++..+.
T Consensus        59 i~~Ge~vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          59 IEKGEMLAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhCCCc
Confidence            44667899999999999999999986543

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=92.98  E-value=0.12  Score=43.60  Aligned_cols=21  Identities=29%  Similarity=0.211  Sum_probs=18.9

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      ++|.|++|+|||+|...+...
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999998764

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=92.90  E-value=0.028  Score=49.82  Aligned_cols=30  Identities=23%  Similarity=0.413  Sum_probs=24.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHh---CCcEEEE
Q 007255           55 GLLLYGPPGTGKTSLVRAVVREC---GAHLTVI   84 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v   84 (611)
                      -|.+.|+.|+||||+++.+++.+   |.+++.+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~   34 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAAGRSVATL   34 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEE
Confidence            37889999999999999999876   5555554

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.90  E-value=0.026  Score=48.49  Aligned_cols=22  Identities=41%  Similarity=0.668  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -++|+|++|+|||+|++.+...
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999999863

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=92.90  E-value=0.014  Score=53.13  Aligned_cols=28  Identities=25%  Similarity=0.452  Sum_probs=23.9

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      +.....+.|.||+|+||||+++.++...
T Consensus        28 i~~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          28 IENGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            4456789999999999999999998743

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.88  E-value=0.028  Score=48.13  Aligned_cols=22  Identities=32%  Similarity=0.641  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -++|+|++|+|||+|++.+...
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999998864

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=92.86  E-value=0.031  Score=47.59  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .|+|.|++|+|||+|+..+...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            6899999999999999988753

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=92.81  E-value=0.03  Score=48.09  Aligned_cols=25  Identities=16%  Similarity=0.294  Sum_probs=21.4

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHH
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      +...|+|+|.||+|||+|+..+...
T Consensus        14 k~~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          14 QEHKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcC
Confidence            3368999999999999999998653

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=92.77  E-value=0.028  Score=53.56  Aligned_cols=20  Identities=30%  Similarity=0.448  Sum_probs=16.5

Q ss_pred             CCceEEEEcCCCCcHHHHHH
Q 007255           52 WPRGLLLYGPPGTGKTSLVR   71 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~   71 (611)
                      +..++++.|+||||||+++-
T Consensus        23 ~~g~~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          23 TEGPLLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             CSSCEEEEECTTSCHHHHHH
T ss_pred             CCCCEEEEecCCccHHHHHH
Confidence            34679999999999997654

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=92.72  E-value=0.063  Score=45.90  Aligned_cols=23  Identities=17%  Similarity=0.187  Sum_probs=20.1

Q ss_pred             CCcceeCCCCCChHHHHHHHHHH
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      .-+++.|.||+|||+|...+...
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34899999999999999998754

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=92.71  E-value=0.038  Score=49.21  Aligned_cols=33  Identities=21%  Similarity=0.379  Sum_probs=24.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccccc
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH   90 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~~   90 (611)
                      -|-|+|++|+||||+++.+. ++|.+++  ++..+.
T Consensus         5 iIgitG~igSGKStv~~~l~-~~G~~vi--daD~i~   37 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA-DLGINVI--DADIIA   37 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH-HTTCEEE--EHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH-HCCCcEE--EchHHH
Confidence            45689999999999999775 7786644  444443

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=92.67  E-value=0.029  Score=48.09  Aligned_cols=21  Identities=33%  Similarity=0.711  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      .|.++|+||+|||+|++++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            588999999999999999864

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.64  E-value=0.031  Score=48.12  Aligned_cols=21  Identities=33%  Similarity=0.646  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      .+++.|++|+|||+|++.+..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999999865

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.64  E-value=0.031  Score=47.68  Aligned_cols=21  Identities=38%  Similarity=0.436  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      -|+|+|.+|+|||+|++.+..
T Consensus         5 KivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999999875

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.61  E-value=0.032  Score=47.78  Aligned_cols=22  Identities=41%  Similarity=0.594  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -|+++|++|+|||+|++.+...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998854

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=92.61  E-value=0.095  Score=49.92  Aligned_cols=35  Identities=17%  Similarity=0.265  Sum_probs=26.2

Q ss_pred             CcceeCCCCCChHHHHHHHHHHh-----CCcEEeecchhh
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAEL  360 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~-----~~~~~~~~~~~~  360 (611)
                      -+=+.||||+|||++..+++..+     ...++.++++.-
T Consensus        53 ~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~   92 (323)
T d2qm8a1          53 RVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSST   92 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGG
T ss_pred             EEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccH
Confidence            36689999999999999999765     334566665433

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.58  E-value=0.03  Score=47.76  Aligned_cols=21  Identities=19%  Similarity=0.306  Sum_probs=19.1

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|+..+...
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998864

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=92.57  E-value=0.042  Score=51.94  Aligned_cols=40  Identities=10%  Similarity=-0.011  Sum_probs=30.4

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHhC-----CcEEeecchhhc
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAAE-----ASFFSLSGAELY  361 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~~-----~~~~~~~~~~~~  361 (611)
                      +.|.-+-+.|++|+||||+|+.++..+.     ..+..++..++.
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~  122 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFL  122 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeE
Confidence            3344566899999999999999999873     446666666664

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.57  E-value=0.03  Score=48.74  Aligned_cols=21  Identities=33%  Similarity=0.515  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      -|++.|++|+|||+|++.+..
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            589999999999999998875

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.56  E-value=0.03  Score=48.02  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -|+|+|.+|+|||+|++.+...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5999999999999999998763

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=92.55  E-value=0.073  Score=50.05  Aligned_cols=18  Identities=28%  Similarity=0.368  Sum_probs=15.2

Q ss_pred             CCCCCcceeCCCCCChHH
Q 007255          322 SPVRGALLHGPPGCSKTT  339 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~  339 (611)
                      ...+..++.+|+|+|||+
T Consensus         7 ~~~~~~lv~~~TGsGKT~   24 (305)
T d2bmfa2           7 RKKRLTIMDLHPGAGKTK   24 (305)
T ss_dssp             STTCEEEECCCTTSSTTT
T ss_pred             hcCCcEEEEECCCCCHHH
Confidence            345678999999999995

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.47  E-value=0.032  Score=47.56  Aligned_cols=22  Identities=36%  Similarity=0.653  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -+++.|++|+|||++++.+...
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999998764

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.42  E-value=0.032  Score=47.52  Aligned_cols=22  Identities=27%  Similarity=0.582  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -|++.|++|+|||+++..+...
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999998764

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.38  E-value=0.035  Score=47.11  Aligned_cols=22  Identities=23%  Similarity=0.380  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .|++.|++|+|||+|++.+...
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998763

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=92.38  E-value=0.03  Score=48.52  Aligned_cols=21  Identities=19%  Similarity=0.463  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      .|+|+|+||+|||+|+.++..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999974

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=92.37  E-value=0.061  Score=45.87  Aligned_cols=20  Identities=20%  Similarity=0.310  Sum_probs=18.6

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +++.|++|+|||+|+..+..
T Consensus         7 ivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999875

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.36  E-value=0.035  Score=47.65  Aligned_cols=21  Identities=38%  Similarity=0.665  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      .+++.|++|+|||+|++.+..
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            489999999999999999875

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=92.35  E-value=0.045  Score=48.58  Aligned_cols=31  Identities=29%  Similarity=0.434  Sum_probs=24.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhCCcEEEEccccc
Q 007255           56 LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (611)
Q Consensus        56 iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~~   89 (611)
                      |-++|++||||||+++.+. ++|.+++  ++..+
T Consensus         5 IgITG~igSGKStv~~~l~-~~G~~vi--daD~i   35 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT-DLGVPLV--DADVV   35 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH-TTTCCEE--EHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEE--EchHH
Confidence            5689999999999999775 6787765  44443

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.34  E-value=0.034  Score=47.60  Aligned_cols=21  Identities=38%  Similarity=0.678  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      -|+++|++|+|||+|++.+..
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            488999999999999998875

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=92.34  E-value=0.11  Score=49.43  Aligned_cols=37  Identities=24%  Similarity=0.403  Sum_probs=28.2

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---C--CcEEEEccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---G--AHLTVISPHSV   89 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~--~~~~~v~~~~~   89 (611)
                      ..-|=+.||||+||||++..+++.+   +  ..++.+++++-
T Consensus        51 ~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~   92 (323)
T d2qm8a1          51 AIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSST   92 (323)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGG
T ss_pred             ceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccH
Confidence            3568899999999999999998764   3  34566666543

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.30  E-value=0.036  Score=48.13  Aligned_cols=21  Identities=38%  Similarity=0.667  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      -|+++|.+|||||++++.+..
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999999876

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=92.22  E-value=0.022  Score=50.17  Aligned_cols=31  Identities=19%  Similarity=0.173  Sum_probs=25.6

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcEEeec
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~  356 (611)
                      -+.+-|+.|+||||+++.|+..++...+...
T Consensus        11 ~I~ieG~~GsGKTTl~~~L~~~l~~~~~~~e   41 (197)
T d2vp4a1          11 TVLIEGNIGSGKTTYLNHFEKYKNDICLLTE   41 (197)
T ss_dssp             EEEEECSTTSCHHHHHHTTGGGTTTEEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEEEE
Confidence            4678899999999999999999976655443

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.21  E-value=0.036  Score=48.08  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .-++++|.+|+|||+|++.+...
T Consensus         6 iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           6 IKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999998764

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.19  E-value=0.036  Score=47.68  Aligned_cols=23  Identities=26%  Similarity=0.504  Sum_probs=20.2

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .-|+|+|.+|+|||+|++.+...
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            36999999999999999988763

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=92.17  E-value=0.032  Score=49.56  Aligned_cols=28  Identities=25%  Similarity=0.237  Sum_probs=23.2

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      +-++|++|||||++|+.+. +.|++++..
T Consensus         5 IgITG~igSGKStv~~~l~-~~G~~vida   32 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT-DLGVPLVDA   32 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH-TTTCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEEEc
Confidence            3479999999999999886 678887653

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=92.14  E-value=0.036  Score=49.39  Aligned_cols=27  Identities=30%  Similarity=0.325  Sum_probs=22.7

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEe
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~  354 (611)
                      +-++|++|+|||++|+.+. ..|++++.
T Consensus         6 IgitG~igSGKStv~~~l~-~~G~~vid   32 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA-DLGINVID   32 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH-HTTCEEEE
T ss_pred             EEEECCCcCCHHHHHHHHH-HCCCcEEE
Confidence            4589999999999999886 77877664

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.11  E-value=0.037  Score=47.14  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .-|+|.|++|+|||+|++.+...
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            46899999999999999998763

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.10  E-value=0.04  Score=47.34  Aligned_cols=22  Identities=36%  Similarity=0.610  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -|+|+|++|+|||+++..+...
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999988763

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=92.08  E-value=0.032  Score=48.35  Aligned_cols=26  Identities=27%  Similarity=0.447  Sum_probs=22.1

Q ss_pred             CCCCCceEEEEcCCCCcHHHHHHHHH
Q 007255           49 GLKWPRGLLLYGPPGTGKTSLVRAVV   74 (611)
Q Consensus        49 g~~~~~~iLl~Gp~GtGKT~la~~la   74 (611)
                      +......|+++|++|+|||++++.+.
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTC
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHh
Confidence            44566789999999999999998874

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.04  E-value=0.041  Score=46.88  Aligned_cols=22  Identities=32%  Similarity=0.578  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .|+|+|.+|+|||+|++.+...
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998763

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.04  E-value=0.042  Score=46.85  Aligned_cols=22  Identities=32%  Similarity=0.560  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .|+++|.+|+|||+|++.+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999998764

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.00  E-value=0.042  Score=46.97  Aligned_cols=22  Identities=32%  Similarity=0.489  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -++++|++|+|||++++.+...
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999988763

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=91.99  E-value=0.037  Score=50.39  Aligned_cols=29  Identities=17%  Similarity=0.211  Sum_probs=24.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~   85 (611)
                      -|-|+|+.||||||+|+.+++.+|..  .++
T Consensus         3 iIgiTG~igSGKsTva~~l~e~~g~~--~i~   31 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMSNYSAV--KYQ   31 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSCEE--ECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCCCe--EEc
Confidence            47799999999999999999988743  444

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=91.98  E-value=0.046  Score=46.92  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=20.1

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHH
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~   75 (611)
                      ...|+++|++|+|||+|++.+..
T Consensus        16 ~~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          16 EVRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhc
Confidence            35799999999999999998854

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=91.98  E-value=0.036  Score=51.12  Aligned_cols=27  Identities=19%  Similarity=0.343  Sum_probs=23.0

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHH
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      +.....+-|.||+|+||||++++++..
T Consensus        25 i~~GEi~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          25 ARAGDVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHcC
Confidence            345678999999999999999999754

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.97  E-value=0.033  Score=47.89  Aligned_cols=21  Identities=19%  Similarity=0.275  Sum_probs=18.8

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|+||||||+|+..+.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            789999999999999998754

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=91.96  E-value=0.033  Score=47.14  Aligned_cols=21  Identities=29%  Similarity=0.309  Sum_probs=19.1

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      ++|.|+||+|||+|.+++...
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998764

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.95  E-value=0.043  Score=47.32  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=19.8

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~   75 (611)
                      -.|+++|++|+|||++++.+..
T Consensus         8 iKi~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           8 LKILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            3599999999999999999875

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.94  E-value=0.033  Score=46.78  Aligned_cols=21  Identities=29%  Similarity=0.287  Sum_probs=19.1

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      ++|.|+||+|||+|...+...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999998864

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.93  E-value=0.04  Score=46.72  Aligned_cols=21  Identities=33%  Similarity=0.536  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      -|++.|.+|+|||+|++.+..
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999999875

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.91  E-value=0.04  Score=47.28  Aligned_cols=21  Identities=33%  Similarity=0.672  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      -|+|.|++|+|||++++.+..
T Consensus         7 KI~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999999875

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=91.90  E-value=0.044  Score=46.80  Aligned_cols=21  Identities=24%  Similarity=0.494  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      -|+|+|++|+|||++++.+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999999875

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=91.86  E-value=0.13  Score=48.96  Aligned_cols=37  Identities=27%  Similarity=0.422  Sum_probs=27.1

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---C--CcEEEEccccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---G--AHLTVISPHSV   89 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~--~~~~~v~~~~~   89 (611)
                      ...|-+.||||+|||||+..++..+   |  ..++.+++++-
T Consensus        54 ~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~   95 (327)
T d2p67a1          54 TLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSP   95 (327)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC--
T ss_pred             ceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCcee
Confidence            4568999999999999999998765   3  34555665543

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=91.85  E-value=0.041  Score=48.26  Aligned_cols=22  Identities=23%  Similarity=0.507  Sum_probs=19.8

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~   75 (611)
                      ..|.|+|+||+|||||++++..
T Consensus        24 ~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          24 PEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHhcC
Confidence            3699999999999999999974

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=91.83  E-value=0.034  Score=47.73  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=20.9

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHH
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~   75 (611)
                      ....|+++|+||+|||++++.+..
T Consensus        11 k~~kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          11 KEMRILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHTTC
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhc
Confidence            346799999999999999998864

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.81  E-value=0.042  Score=47.34  Aligned_cols=23  Identities=26%  Similarity=0.458  Sum_probs=20.1

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .-|++.|++|+|||+|+..+...
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            35889999999999999998764

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.80  E-value=0.46  Score=41.63  Aligned_cols=17  Identities=41%  Similarity=0.569  Sum_probs=14.9

Q ss_pred             ceEEEEcCCCCcHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLV   70 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la   70 (611)
                      +++++.+|+|+|||..-
T Consensus        39 ~dvi~~a~tGsGKTlay   55 (206)
T d1s2ma1          39 RDILARAKNGTGKTAAF   55 (206)
T ss_dssp             CCEEEECCTTSCHHHHH
T ss_pred             CCEEEecCCcchhhhhh
Confidence            68999999999999544

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=91.75  E-value=0.024  Score=52.23  Aligned_cols=29  Identities=21%  Similarity=0.352  Sum_probs=23.6

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +.+...+.++||+|+||||+++.++..+.
T Consensus        41 i~~Ge~vaivG~sGsGKSTLl~ll~gl~~   69 (255)
T d2hyda1          41 IEKGETVAFVGMSGGGKSTLINLIPRFYD   69 (255)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHTTTTTSSC
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHhcCC
Confidence            45667899999999999999988765433

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.73  E-value=0.044  Score=46.78  Aligned_cols=21  Identities=43%  Similarity=0.730  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      -|+|.|++|+|||+|++.+..
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhC
Confidence            478999999999999998864

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.64  E-value=0.049  Score=46.51  Aligned_cols=22  Identities=36%  Similarity=0.557  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -+++.|++|+|||+|+..+...
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5889999999999999988754

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=91.54  E-value=0.045  Score=46.93  Aligned_cols=21  Identities=24%  Similarity=0.191  Sum_probs=18.9

Q ss_pred             CcceeCCCCCChHHHHHHHHH
Q 007255          326 GALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~  346 (611)
                      -+++.|+||+|||+|...+..
T Consensus        14 kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999999864

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=91.51  E-value=0.1  Score=48.53  Aligned_cols=26  Identities=27%  Similarity=0.456  Sum_probs=22.5

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      ....+++.||+|||||+++..+++..
T Consensus        42 rGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          42 RGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             TTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            34579999999999999999998755

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=91.46  E-value=0.048  Score=50.82  Aligned_cols=36  Identities=17%  Similarity=0.300  Sum_probs=25.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcccccc
Q 007255           55 GLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVH   90 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~~~~   90 (611)
                      -|-+.|++|+||||+++++.+.+   +.....++..++.
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsfy   44 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   44 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCCC
Confidence            68899999999999999988766   5566666666553

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=91.43  E-value=0.041  Score=51.91  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=16.8

Q ss_pred             CCcceeCCCCCChHHHH-HHHHHH
Q 007255          325 RGALLHGPPGCSKTTLA-KAAAHA  347 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la-~ala~~  347 (611)
                      .++|+.|+||||||+++ ..++..
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv~~l   38 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKIAHL   38 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHHHHHHHH
Confidence            35899999999999754 444443

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=91.42  E-value=0.033  Score=51.53  Aligned_cols=25  Identities=32%  Similarity=0.517  Sum_probs=22.1

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHH
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .+..|+|.|.||+|||+++.++..+
T Consensus        31 ~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          31 NSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhCC
Confidence            4578999999999999999999753

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=91.38  E-value=0.06  Score=53.66  Aligned_cols=33  Identities=36%  Similarity=0.713  Sum_probs=25.6

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~   86 (611)
                      .|++++|++|+|||++++.+...+   +..++.++.
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~   86 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDP   86 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEE
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeC
Confidence            799999999999999988776543   555555554

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.34  E-value=0.03  Score=50.86  Aligned_cols=29  Identities=17%  Similarity=0.345  Sum_probs=24.9

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~~~   82 (611)
                      +-|.+.|+.|+||||+++.+++.+....+
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~~l~~~~~   31 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQLCEDWEV   31 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCTTEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhcCCC
Confidence            56899999999999999999999865433

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.31  E-value=0.092  Score=44.63  Aligned_cols=20  Identities=40%  Similarity=0.635  Sum_probs=18.1

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +++.|++|+|||+|+..+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            68899999999999998864

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.28  E-value=0.052  Score=46.51  Aligned_cols=21  Identities=29%  Similarity=0.540  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      -|+|.|++|+|||+|++.+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999998864

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.24  E-value=0.052  Score=47.61  Aligned_cols=22  Identities=36%  Similarity=0.588  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -|++.|++|+|||+|++.+...
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            4899999999999999998753

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.19  E-value=0.058  Score=46.08  Aligned_cols=23  Identities=26%  Similarity=0.453  Sum_probs=20.2

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -.++|+|++|+|||++++.++..
T Consensus         5 ~Ki~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           5 YKLVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            35899999999999999998863

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=91.17  E-value=0.04  Score=46.79  Aligned_cols=21  Identities=29%  Similarity=0.275  Sum_probs=19.0

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|.+.+...
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            789999999999999998753

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=91.13  E-value=0.045  Score=49.62  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=19.8

Q ss_pred             cceeCCCCCChHHHHHHHHHHh
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +++.||+|+|||||..++.+.+
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Confidence            5789999999999999998765

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=91.04  E-value=0.039  Score=50.29  Aligned_cols=28  Identities=25%  Similarity=0.300  Sum_probs=23.6

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      .+..-+-|.||.|+||||++++++..+.
T Consensus        30 ~~Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          30 PRGQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            4557889999999999999999977553

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.03  E-value=0.048  Score=46.42  Aligned_cols=21  Identities=19%  Similarity=0.322  Sum_probs=19.2

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|+..+...
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999999864

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.02  E-value=0.056  Score=46.68  Aligned_cols=22  Identities=23%  Similarity=0.524  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -++|.|++|+|||+|++.+...
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4799999999999999988764

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.99  E-value=0.048  Score=46.29  Aligned_cols=20  Identities=10%  Similarity=0.233  Sum_probs=18.5

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +++.|+||+|||+|+..+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998875

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=90.93  E-value=0.048  Score=49.60  Aligned_cols=29  Identities=28%  Similarity=0.352  Sum_probs=23.8

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      +.+..-+-|.||.|+||||+.+.++..+.
T Consensus        25 v~~Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          25 IEEGEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            34556788999999999999999987653

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.85  E-value=0.059  Score=46.80  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=20.1

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -.|+|+|.+|+|||+|++.+...
T Consensus        10 ~Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          10 LKCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhhC
Confidence            35899999999999999998764

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=90.84  E-value=0.076  Score=46.85  Aligned_cols=29  Identities=28%  Similarity=0.299  Sum_probs=23.7

Q ss_pred             cceeCCCCCChHHHHHHHHHHh---CCcEEee
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAA---EASFFSL  355 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~  355 (611)
                      |.|.|+.|+||||+++.|+..+   |.+++.+
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~   34 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAAGRSVATL   34 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEE
Confidence            4578999999999999999876   5566554

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=90.84  E-value=0.044  Score=49.32  Aligned_cols=29  Identities=31%  Similarity=0.497  Sum_probs=20.7

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHhCCc
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAH   80 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l~~~   80 (611)
                      .++..+|.|++|+|||+|+.++.......
T Consensus        96 ~~~~~vl~G~SGVGKSSLiN~L~~~~~~~  124 (231)
T d1t9ha2          96 QDKTTVFAGQSGVGKSSLLNAISPELGLR  124 (231)
T ss_dssp             TTSEEEEEESHHHHHHHHHHHHCC-----
T ss_pred             ccceEEEECCCCccHHHHHHhhccHhHhh
Confidence            34667899999999999999997655433

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.81  E-value=0.051  Score=46.22  Aligned_cols=21  Identities=19%  Similarity=0.278  Sum_probs=19.0

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|++.+.+.
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998864

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=90.78  E-value=0.034  Score=47.91  Aligned_cols=20  Identities=25%  Similarity=0.257  Sum_probs=18.3

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      ++|.|+||+|||+|..++..
T Consensus        16 I~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          16 LVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             EEEEEETTSSHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999854

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.77  E-value=0.051  Score=46.38  Aligned_cols=21  Identities=24%  Similarity=0.241  Sum_probs=19.1

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|...+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999998864

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=90.65  E-value=0.16  Score=46.65  Aligned_cols=24  Identities=17%  Similarity=0.206  Sum_probs=20.9

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHH
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      .-.++|.|.||+|||++..+|...
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCcHHHHHHHHhCC
Confidence            346999999999999999999754

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.58  E-value=0.056  Score=46.11  Aligned_cols=21  Identities=19%  Similarity=0.259  Sum_probs=19.0

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|...+...
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999998864

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=90.57  E-value=0.062  Score=50.06  Aligned_cols=35  Identities=14%  Similarity=0.232  Sum_probs=25.3

Q ss_pred             cceeCCCCCChHHHHHHHHHHh---CCcEEeecchhhc
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELY  361 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~~~~~  361 (611)
                      +-+.|++|+|||++++++++.+   +.+...++..++.
T Consensus         7 IgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsfy   44 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   44 (288)
T ss_dssp             EEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCCC
Confidence            6689999999999999999876   5566667766664

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.56  E-value=0.04  Score=47.34  Aligned_cols=21  Identities=38%  Similarity=0.553  Sum_probs=9.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      -|++.|.+|||||+|++.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEEECCCCC-----------
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999998764

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=90.56  E-value=0.23  Score=44.54  Aligned_cols=37  Identities=22%  Similarity=0.273  Sum_probs=28.4

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccc
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~   87 (611)
                      ..+...||+|.+|+|||.++-..+...   |.....+-+.
T Consensus        74 ~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt  113 (233)
T d2eyqa3          74 PLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPT  113 (233)
T ss_dssp             SSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSS
T ss_pred             cCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccH
Confidence            456799999999999999988766543   6666666554

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.51  E-value=0.034  Score=47.67  Aligned_cols=22  Identities=41%  Similarity=0.623  Sum_probs=18.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -|++.|++|+|||+|++.+...
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5889999999999999987653

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.49  E-value=0.067  Score=46.69  Aligned_cols=22  Identities=23%  Similarity=0.323  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -|+|.|++|+|||+|+..+...
T Consensus         5 KvvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5889999999999999988764

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.33  E-value=0.056  Score=46.87  Aligned_cols=20  Identities=30%  Similarity=0.303  Sum_probs=18.3

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +++.|++|+|||+|++.+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            78999999999999998874

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.31  E-value=0.06  Score=46.23  Aligned_cols=21  Identities=24%  Similarity=0.368  Sum_probs=18.8

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|+..+.+.
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998753

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=90.30  E-value=0.24  Score=40.62  Aligned_cols=72  Identities=22%  Similarity=0.389  Sum_probs=38.8

Q ss_pred             EEEcCCCCcHHH-HHHHH--HHHhCCcEEEEcccc-cc-----cccccc-----hHHHHHHHHHHHHhhhhcCCCeEEEE
Q 007255           57 LLYGPPGTGKTS-LVRAV--VRECGAHLTVISPHS-VH-----KAHVGE-----SEKALREAFSQASSHALSGKPSVVFI  122 (611)
Q Consensus        57 Ll~Gp~GtGKT~-la~~l--a~~l~~~~~~v~~~~-~~-----~~~~~~-----~~~~l~~~f~~~~~~~~~~~~~il~I  122 (611)
                      +++||-.+|||+ |++.+  .+..+.+++.++++. ..     ....|.     .......++.............+++|
T Consensus         6 ~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ikp~~D~R~~~~i~s~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvI~I   85 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKVIGI   85 (139)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCEEEE
T ss_pred             EEEccccCHHHHHHHHHHHHHHHCCCcEEEEEEcccccccceEEcccCceeeeEEeccchhhHHHHHhhccccCcCEEEe
Confidence            678999999999 55555  334577776665431 11     000110     00112233333332222335679999


Q ss_pred             cccccc
Q 007255          123 DEIDAL  128 (611)
Q Consensus       123 Deid~l  128 (611)
                      ||+.-+
T Consensus        86 DE~QFf   91 (139)
T d2b8ta1          86 DEVQFF   91 (139)
T ss_dssp             CSGGGS
T ss_pred             chhhhc
Confidence            999765

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=90.29  E-value=0.052  Score=46.79  Aligned_cols=25  Identities=16%  Similarity=0.226  Sum_probs=21.1

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHH
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~   75 (611)
                      .....|.|+|+|++|||+|++++..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            3456799999999999999998843

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=90.26  E-value=0.055  Score=48.06  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=20.0

Q ss_pred             cceeCCCCCChHHHHHHHHHHh
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      +.|-|+.|+||||+++.++..+
T Consensus         5 IviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6677999999999999999877

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.21  E-value=0.062  Score=45.69  Aligned_cols=20  Identities=25%  Similarity=0.238  Sum_probs=18.4

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      ++|.|.+|||||+|+..+..
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68999999999999998875

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.17  E-value=0.054  Score=46.27  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=19.1

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|++.+.+.
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999999863

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=90.15  E-value=0.042  Score=50.65  Aligned_cols=27  Identities=15%  Similarity=0.177  Sum_probs=22.3

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      ....-+-|.||+|+|||+++++++...
T Consensus        26 ~~GEi~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          26 RAGDVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            444557899999999999999998644

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=90.08  E-value=0.05  Score=50.02  Aligned_cols=28  Identities=25%  Similarity=0.408  Sum_probs=23.3

Q ss_pred             CCCceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           51 KWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        51 ~~~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      .+..-+-|.||.|+||||+++.++..+.
T Consensus        28 ~~Gei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          28 NKGDVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHCCCc
Confidence            3556789999999999999999976543

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.04  E-value=0.064  Score=45.73  Aligned_cols=21  Identities=19%  Similarity=0.265  Sum_probs=19.0

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|+..+.+.
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999998854

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=89.96  E-value=0.16  Score=47.34  Aligned_cols=26  Identities=35%  Similarity=0.400  Sum_probs=23.2

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      .|+-++++|.-|+||||++-++|..+
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~l   32 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRL   32 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHH
Confidence            57889999999999999999988765

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=89.91  E-value=0.068  Score=50.70  Aligned_cols=24  Identities=21%  Similarity=0.163  Sum_probs=17.5

Q ss_pred             CCcceeCCCCCChHHHH-HHHHHHh
Q 007255          325 RGALLHGPPGCSKTTLA-KAAAHAA  348 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la-~ala~~~  348 (611)
                      ..+++.|+||||||+++ ..+|..+
T Consensus        25 g~~lV~g~aGSGKTt~l~~ri~~ll   49 (318)
T d1pjra1          25 GPLLIMAGAGSGKTRVLTHRIAYLM   49 (318)
T ss_dssp             SCEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEecCCccHHHHHHHHHHHHH
Confidence            45899999999999754 4444443

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.89  E-value=0.06  Score=45.97  Aligned_cols=20  Identities=20%  Similarity=0.277  Sum_probs=18.7

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      ++|.|.+|+|||+|.+.+..
T Consensus         8 i~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            89999999999999998876

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=89.87  E-value=0.045  Score=49.58  Aligned_cols=26  Identities=31%  Similarity=0.498  Sum_probs=22.2

Q ss_pred             CCCCceEEEEcCCCCcHHHHHHHHHH
Q 007255           50 LKWPRGLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        50 ~~~~~~iLl~Gp~GtGKT~la~~la~   75 (611)
                      +....-+-|.||.|+||||+.+.++.
T Consensus        22 I~~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          22 VRAGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EETTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhC
Confidence            34567899999999999999998875

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=89.86  E-value=0.1  Score=44.94  Aligned_cols=25  Identities=24%  Similarity=0.449  Sum_probs=21.4

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHH
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      ....|.+.|.+|+|||+|+.++...
T Consensus         7 ~~~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           7 DAIKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
Confidence            3467999999999999999998753

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=89.85  E-value=0.083  Score=45.23  Aligned_cols=22  Identities=23%  Similarity=0.484  Sum_probs=20.0

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~   75 (611)
                      ..|.|.|.||+|||+|++++.+
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999975

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=89.83  E-value=0.065  Score=48.66  Aligned_cols=27  Identities=22%  Similarity=0.161  Sum_probs=23.2

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEE
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFF  353 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~  353 (611)
                      +-|+|+.||||||+|+.++...|...+
T Consensus         4 IgiTG~igSGKsTva~~l~e~~g~~~i   30 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNYSAVKY   30 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCeEE
Confidence            568999999999999999998876543

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.83  E-value=0.067  Score=47.18  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=20.6

Q ss_pred             CcceeCCCCCChHHHHHHHHHHh
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .++|.|+||+|||+|..++...-
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998653

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.66  E-value=0.073  Score=45.52  Aligned_cols=20  Identities=25%  Similarity=0.446  Sum_probs=18.3

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +++.|++|+|||+|...+..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            68999999999999999875

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.66  E-value=0.074  Score=44.98  Aligned_cols=21  Identities=19%  Similarity=0.219  Sum_probs=19.0

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|+..+...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998853

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=89.63  E-value=0.07  Score=45.52  Aligned_cols=20  Identities=30%  Similarity=0.464  Sum_probs=18.4

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +.+.|+||+|||+|.+++..
T Consensus         3 V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           3 VLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            68999999999999999974

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.62  E-value=0.099  Score=46.59  Aligned_cols=29  Identities=21%  Similarity=0.143  Sum_probs=24.3

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCcEEee
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~~~~~  355 (611)
                      +.|-|+-|+||||+++.++..+......+
T Consensus         6 I~iEG~DGsGKST~~~~L~~~L~~~~~~~   34 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYKKLQPNCKLL   34 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTTSEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhCCEEE
Confidence            56789999999999999999996655444

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.45  E-value=0.067  Score=45.36  Aligned_cols=21  Identities=29%  Similarity=0.333  Sum_probs=18.9

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|++.+...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999998764

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=89.40  E-value=0.17  Score=44.05  Aligned_cols=33  Identities=24%  Similarity=0.460  Sum_probs=23.2

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHH----hCCcEEEEcc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRE----CGAHLTVISP   86 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~----l~~~~~~v~~   86 (611)
                      ++.|+++|+|+|||.++-.++..    -+...+.+.+
T Consensus        24 ~n~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~P   60 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP   60 (200)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECS
T ss_pred             CCeEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEcC
Confidence            46899999999999876655543    3445555544

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.38  E-value=0.083  Score=47.86  Aligned_cols=30  Identities=17%  Similarity=0.132  Sum_probs=25.3

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHhCCcEE
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~~~~~~  353 (611)
                      |+=+.|-|+-|+||||+++.++..++...+
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~~~~i   31 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYPEWHV   31 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCTTSEE
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhhcCC
Confidence            345788999999999999999999876544

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=89.33  E-value=0.079  Score=45.79  Aligned_cols=20  Identities=25%  Similarity=0.456  Sum_probs=18.5

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +++.|.+|||||+|+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68999999999999998875

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.32  E-value=0.076  Score=45.24  Aligned_cols=20  Identities=20%  Similarity=0.316  Sum_probs=18.2

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +++.|++|+|||+|...+..
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            68999999999999998875

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.25  E-value=0.081  Score=45.07  Aligned_cols=21  Identities=29%  Similarity=0.352  Sum_probs=18.9

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||++++.+.+.
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988763

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.09  E-value=0.074  Score=45.13  Aligned_cols=21  Identities=14%  Similarity=0.153  Sum_probs=18.9

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|...+.+.
T Consensus         7 v~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998753

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.00  E-value=0.077  Score=45.41  Aligned_cols=21  Identities=19%  Similarity=0.281  Sum_probs=19.0

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|.+|+|||+|+..+...
T Consensus         9 v~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988753

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.95  E-value=0.088  Score=45.00  Aligned_cols=21  Identities=24%  Similarity=0.371  Sum_probs=18.9

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|+..+.+.
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988763

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.91  E-value=0.1  Score=45.58  Aligned_cols=19  Identities=26%  Similarity=0.639  Sum_probs=17.9

Q ss_pred             eEEEEcCCCCcHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAV   73 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~l   73 (611)
                      -|+|.|.+|+|||++++.+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999988

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.84  E-value=0.079  Score=44.75  Aligned_cols=20  Identities=20%  Similarity=0.203  Sum_probs=18.4

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +++.|.+|+|||+|++.+.+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68899999999999999875

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=88.81  E-value=0.082  Score=45.68  Aligned_cols=21  Identities=33%  Similarity=0.507  Sum_probs=18.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      .|-|+|+||+|||+|++++..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999998853

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=88.79  E-value=0.071  Score=45.63  Aligned_cols=21  Identities=43%  Similarity=0.385  Sum_probs=18.6

Q ss_pred             CcceeCCCCCChHHHHHHHHH
Q 007255          326 GALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~  346 (611)
                      -+++.|+||+|||+|...+..
T Consensus        18 kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            389999999999999998854

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.78  E-value=0.091  Score=44.55  Aligned_cols=21  Identities=19%  Similarity=0.325  Sum_probs=19.0

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|.+|+|||+|++.+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999998754

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=88.72  E-value=0.14  Score=47.65  Aligned_cols=35  Identities=20%  Similarity=0.171  Sum_probs=27.6

Q ss_pred             CCCCCcceeCCCCCChHHHHHHHHHHh---CCcEEeec
Q 007255          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLS  356 (611)
Q Consensus       322 ~~~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~  356 (611)
                      ..|+-+++.|.-|+|||++|-++|..+   |..+.-++
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD   43 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVS   43 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEe
Confidence            346678899999999999999998877   66655444

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.69  E-value=0.082  Score=45.20  Aligned_cols=20  Identities=25%  Similarity=0.310  Sum_probs=18.5

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +++.|.+|+|||+|+..+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998875

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.68  E-value=0.093  Score=45.03  Aligned_cols=21  Identities=24%  Similarity=0.351  Sum_probs=19.1

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|+..+.+.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998763

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.67  E-value=0.082  Score=45.37  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=18.8

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|+..+...
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            688999999999999988864

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.62  E-value=0.097  Score=44.39  Aligned_cols=21  Identities=19%  Similarity=0.253  Sum_probs=18.9

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|.+|+|||+|.+.+.+.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998753

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=88.54  E-value=0.037  Score=46.62  Aligned_cols=22  Identities=27%  Similarity=0.684  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .|.|.|.||+|||+|++++..+
T Consensus         2 kI~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999764

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=88.51  E-value=0.082  Score=45.49  Aligned_cols=21  Identities=43%  Similarity=0.634  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~   75 (611)
                      .|.|+|.||+|||+|++++..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999999854

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=88.42  E-value=0.058  Score=47.10  Aligned_cols=23  Identities=30%  Similarity=0.261  Sum_probs=20.7

Q ss_pred             cceeCCCCCChHHHHHHHHHHhC
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAE  349 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~  349 (611)
                      .+|+||.|+|||++..||...+.
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            58899999999999999997764

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.39  E-value=0.13  Score=44.09  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.6

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      -.+++.|++|+|||+|+..+...
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            57999999999999999988764

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=88.24  E-value=0.079  Score=45.59  Aligned_cols=21  Identities=19%  Similarity=0.235  Sum_probs=19.0

Q ss_pred             CcceeCCCCCChHHHHHHHHH
Q 007255          326 GALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~  346 (611)
                      .++|.|+||+|||+|..++.+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            378999999999999999975

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=88.22  E-value=0.34  Score=42.35  Aligned_cols=33  Identities=21%  Similarity=0.161  Sum_probs=23.3

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCcEEeecc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~~~~~~~  357 (611)
                      +++++.-|+|+|||.++...........+.+.+
T Consensus        41 ~~vlv~apTGsGKT~~~~~~~~~~~~~~~~v~P   73 (206)
T d1oywa2          41 RDCLVVMPTGGGKSLCYQIPALLLNGLTVVVSP   73 (206)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHHSSSEEEEECS
T ss_pred             CCEEEEcCCCCCCcchhhhhhhhccCceEEecc
Confidence            579999999999999876555544444444443

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.21  E-value=0.1  Score=44.28  Aligned_cols=21  Identities=14%  Similarity=0.219  Sum_probs=18.6

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|...+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999988754

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.18  E-value=0.1  Score=44.59  Aligned_cols=20  Identities=40%  Similarity=0.483  Sum_probs=18.2

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      ++|.|++|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998874

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.09  E-value=0.11  Score=44.20  Aligned_cols=21  Identities=19%  Similarity=0.248  Sum_probs=19.0

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|+..+...
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998863

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=87.97  E-value=0.56  Score=42.17  Aligned_cols=17  Identities=29%  Similarity=0.556  Sum_probs=15.1

Q ss_pred             CceEEEEcCCCCcHHHH
Q 007255           53 PRGLLLYGPPGTGKTSL   69 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~l   69 (611)
                      .+++++..|+|||||..
T Consensus        58 g~dvvi~a~TGsGKTla   74 (238)
T d1wrba1          58 HRDIMACAQTGSGKTAA   74 (238)
T ss_dssp             TCCEEEECCTTSSHHHH
T ss_pred             CCCEEEECCCCCCccee
Confidence            36899999999999983

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.85  E-value=0.11  Score=44.74  Aligned_cols=21  Identities=19%  Similarity=0.194  Sum_probs=19.0

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|.+|+|||+|...+...
T Consensus         8 ivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           8 CVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            799999999999999988764

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.73  E-value=0.069  Score=48.29  Aligned_cols=27  Identities=15%  Similarity=0.101  Sum_probs=22.9

Q ss_pred             CcceeCCCCCChHHHHHHHHHHhCCcE
Q 007255          326 GALLHGPPGCSKTTLAKAAAHAAEASF  352 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~~~~~~  352 (611)
                      -+.|-|+.|+||||+++.|++.+....
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~l~~~~   30 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQLCEDWE   30 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCTTEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhcCC
Confidence            367899999999999999999885433

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=87.72  E-value=0.13  Score=45.97  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=20.0

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .-|||.|++|+|||++++.+...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999988543

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.60  E-value=0.1  Score=44.85  Aligned_cols=21  Identities=29%  Similarity=0.449  Sum_probs=18.8

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      ++|.|++|+|||+|+..+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999988763

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=87.54  E-value=0.15  Score=50.64  Aligned_cols=34  Identities=21%  Similarity=0.300  Sum_probs=25.8

Q ss_pred             CCCcceeCCCCCChHHHHHHHHHHh---CCcEEeecc
Q 007255          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG  357 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~  357 (611)
                      .+|+++.|++|+|||.++..+...+   +..++.+++
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~   86 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDP   86 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEE
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeC
Confidence            3689999999999999887665443   666666655

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=87.20  E-value=0.27  Score=43.22  Aligned_cols=32  Identities=19%  Similarity=0.261  Sum_probs=24.7

Q ss_pred             ceEEEEcC-CCCcHHHHHHHHHHHh---CCcEEEEc
Q 007255           54 RGLLLYGP-PGTGKTSLVRAVVREC---GAHLTVIS   85 (611)
Q Consensus        54 ~~iLl~Gp-~GtGKT~la~~la~~l---~~~~~~v~   85 (611)
                      +.++++|- +|+|||+++-.+|..+   |..+..++
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id   37 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYK   37 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEEC
Confidence            57899999 5999999999988755   45554444

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=87.13  E-value=0.22  Score=43.30  Aligned_cols=33  Identities=24%  Similarity=0.254  Sum_probs=23.3

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh----CCcEEeecc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSG  357 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~----~~~~~~~~~  357 (611)
                      ++.|+++|+|+|||.++-.++...    +..++.+.+
T Consensus        24 ~n~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~P   60 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP   60 (200)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECS
T ss_pred             CCeEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEcC
Confidence            358899999999998777666432    445555554

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.08  E-value=0.077  Score=45.38  Aligned_cols=20  Identities=30%  Similarity=0.318  Sum_probs=8.4

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +++.|.+|||||+|...+.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998875

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.08  E-value=0.12  Score=45.18  Aligned_cols=21  Identities=29%  Similarity=0.333  Sum_probs=18.8

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|+..+.+.
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            789999999999999988753

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=87.04  E-value=0.45  Score=42.32  Aligned_cols=22  Identities=36%  Similarity=0.428  Sum_probs=19.5

Q ss_pred             cceeCCCCCChHHHHHHHHHHh
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAA  348 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~  348 (611)
                      .++.|.-|+||||+.+.+....
T Consensus         6 ~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEeeCCCCCHHHHHHHHHhcC
Confidence            6899999999999999888754

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.68  E-value=0.17  Score=43.83  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHh
Q 007255           55 GLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      -|++.|.+|+|||++++.+...-
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999987654

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.65  E-value=0.13  Score=44.46  Aligned_cols=21  Identities=24%  Similarity=0.257  Sum_probs=18.8

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|.+|+|||+|...+.+.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            789999999999999998753

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=86.43  E-value=0.085  Score=45.47  Aligned_cols=22  Identities=27%  Similarity=0.241  Sum_probs=19.0

Q ss_pred             CCCcceeCCCCCChHHHHHHHH
Q 007255          324 VRGALLHGPPGCSKTTLAKAAA  345 (611)
Q Consensus       324 ~~~~Ll~Gp~G~GKT~la~ala  345 (611)
                      .--+++.|++|+|||+|.+.+.
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTC
T ss_pred             eEEEEEECCCCCCHHHHHHHHh
Confidence            3458999999999999999875

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.38  E-value=0.07  Score=45.56  Aligned_cols=21  Identities=33%  Similarity=0.390  Sum_probs=17.4

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|...+...
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999987643

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=86.34  E-value=0.16  Score=44.17  Aligned_cols=21  Identities=14%  Similarity=0.253  Sum_probs=19.1

Q ss_pred             CcceeCCCCCChHHHHHHHHH
Q 007255          326 GALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~  346 (611)
                      -+.|.|+||+|||+|..++.+
T Consensus        25 ~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHhcC
Confidence            389999999999999999974

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.33  E-value=0.13  Score=44.58  Aligned_cols=21  Identities=19%  Similarity=0.194  Sum_probs=18.5

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +++.|++|+|||+|+..+...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988753

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=86.26  E-value=0.12  Score=46.19  Aligned_cols=27  Identities=19%  Similarity=0.259  Sum_probs=21.6

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHhCCc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAAEAS  351 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~~~~  351 (611)
                      +..+|.|++|+|||+|..++.......
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~~~~~  122 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPGLKLR  122 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTCCCC
T ss_pred             CeEEEECCCCCCHHHHHHhhcchhhhh
Confidence            357899999999999999987554433

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=86.17  E-value=0.063  Score=46.86  Aligned_cols=23  Identities=30%  Similarity=0.335  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhC
Q 007255           56 LLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        56 iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      .+|+||.|+|||+++.++.--++
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            45789999999999999987764

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.10  E-value=0.38  Score=47.06  Aligned_cols=24  Identities=21%  Similarity=0.365  Sum_probs=21.7

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHH
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~   75 (611)
                      .+.+|.+.|.||+|||+++.++..
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            468999999999999999999964

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=85.87  E-value=0.16  Score=48.35  Aligned_cols=26  Identities=23%  Similarity=0.317  Sum_probs=23.4

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCC
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGA   79 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~   79 (611)
                      .-|.|-|+-|+||||+++.+++.++.
T Consensus         7 ~rI~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           7 VRIYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEEEECCccCCHHHHHHHHHHHhcc
Confidence            46899999999999999999998853

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=85.00  E-value=0.22  Score=42.81  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRE   76 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~   76 (611)
                      .++|.|..|+|||++++.+...
T Consensus         4 KivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            6899999999999999987543

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=84.98  E-value=1  Score=43.87  Aligned_cols=58  Identities=24%  Similarity=0.271  Sum_probs=45.6

Q ss_pred             cccccCCcHHHHHHHHHHHHhhhhCchHHHhcCCCCCceEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcccc
Q 007255           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (611)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~g~~~~~~iLl~Gp~GtGKT~la~~la~~l~~~~~~v~~~~   88 (611)
                      .+..-+-+-.+++.|.+.+..              ..+..+|.|-+|+|||.++..+++..+.+++.+..+.
T Consensus         9 ~~~p~gDQP~aI~~l~~~l~~--------------g~~~q~l~GltGS~ka~~iA~l~~~~~rp~LVVt~n~   66 (413)
T d1t5la1           9 PYEPQGDQPQAIAKLVDGLRR--------------GVKHQTLLGATGTGKTFTISNVIAQVNKPTLVIAHNK   66 (413)
T ss_dssp             SSCCCTTHHHHHHHHHHHHHH--------------TCSEEEEEECTTSCHHHHHHHHHHHHTCCEEEECSSH
T ss_pred             CCCCCCCCHHHHHHHHHHHhc--------------CCCcEEEeCCCCcHHHHHHHHHHHHhCCCEEEEeCCH
Confidence            344556666777777776643              2368899999999999999999999999998888654

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.70  E-value=0.26  Score=43.58  Aligned_cols=56  Identities=14%  Similarity=0.097  Sum_probs=34.7

Q ss_pred             CCCcccccccchhHHHHHHHHHhhccCCChhHHhhcC---CCCCCCcceeCCCCCChHHHHH
Q 007255          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLG---ISPVRGALLHGPPGCSKTTLAK  342 (611)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~---~~~~~~~Ll~Gp~G~GKT~la~  342 (611)
                      .+-.+|+++.-.+++.+.|.+.-   +..+....+..   +-..+.+++..|+|+|||...-
T Consensus         7 ~~~~sF~~l~l~~~l~~~L~~~g---~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKT~a~~   65 (212)
T d1qdea_           7 KVVYKFDDMELDENLLRGVFGYG---FEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFS   65 (212)
T ss_dssp             CCCCCGGGGTCCHHHHHHHHHHT---CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHH
T ss_pred             ccccChhhCCCCHHHHHHHHHCC---CCCCCHHHHHHHHHHHcCCCEEeecccccchhhhhH
Confidence            34568999976777777776532   22222221111   1134679999999999998544

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=84.57  E-value=0.42  Score=43.92  Aligned_cols=35  Identities=23%  Similarity=0.403  Sum_probs=27.1

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~~   87 (611)
                      .+-++++|.-|+||||++-.+|..+   |..+..+++.
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~D   57 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSD   57 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence            4678899999999999988877654   6666666654

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=84.25  E-value=0.08  Score=44.41  Aligned_cols=21  Identities=24%  Similarity=0.403  Sum_probs=19.2

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +.|.|.||+|||+|..++..+
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999999865

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=83.98  E-value=0.2  Score=42.60  Aligned_cols=20  Identities=25%  Similarity=0.326  Sum_probs=18.6

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +.|.|.||+|||+|..++.+
T Consensus         8 I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            78999999999999999974

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=83.87  E-value=0.2  Score=47.03  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=20.1

Q ss_pred             cceeCCCCCChHHHHHHHHHHhC
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAE  349 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~  349 (611)
                      -+|+||.|+|||++..|++..++
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~lg   49 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWVFG   49 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTSC
T ss_pred             EEEECCCCCcHHHHHHHHHHHhC
Confidence            47999999999999999987554

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=83.56  E-value=0.22  Score=44.47  Aligned_cols=23  Identities=43%  Similarity=0.567  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHh
Q 007255           55 GLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      -.++.|.-|+||||+++.+.+..
T Consensus         5 v~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEEeeCCCCCHHHHHHHHHhcC
Confidence            46899999999999999998864

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.53  E-value=0.22  Score=43.24  Aligned_cols=19  Identities=32%  Similarity=0.352  Sum_probs=17.6

Q ss_pred             cceeCCCCCChHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAA  345 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala  345 (611)
                      +++.|.+|+|||+|+..+.
T Consensus         5 ivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            7899999999999999983

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=83.52  E-value=0.14  Score=43.79  Aligned_cols=22  Identities=9%  Similarity=0.155  Sum_probs=19.1

Q ss_pred             CCcceeCCCCCChHHHHHHHHH
Q 007255          325 RGALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~  346 (611)
                      .-+.|.|+|++|||+|..++..
T Consensus        17 ~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          17 IEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3589999999999999998853

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.89  E-value=0.28  Score=41.87  Aligned_cols=22  Identities=14%  Similarity=0.080  Sum_probs=19.5

Q ss_pred             CcceeCCCCCChHHHHHHHHHH
Q 007255          326 GALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      -+++.|++|+|||+|...+...
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988764

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=82.86  E-value=0.23  Score=47.19  Aligned_cols=25  Identities=24%  Similarity=0.371  Sum_probs=22.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhCC
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECGA   79 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~~   79 (611)
                      -|.|-|+-|+||||+++.+++.++.
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4789999999999999999998864

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=82.74  E-value=0.21  Score=46.85  Aligned_cols=24  Identities=29%  Similarity=0.573  Sum_probs=20.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           55 GLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        55 ~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      --+|+||.|+|||++.+|+.-.++
T Consensus        26 lnvlvG~NgsGKS~iL~Ai~~~lg   49 (308)
T d1e69a_          26 VTAIVGPNGSGKSNIIDAIKWVFG   49 (308)
T ss_dssp             EEEEECCTTTCSTHHHHHHHHTSC
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhC
Confidence            457999999999999999976554

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=82.71  E-value=0.2  Score=43.08  Aligned_cols=20  Identities=30%  Similarity=0.336  Sum_probs=17.8

Q ss_pred             cceeCCCCCChHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~  346 (611)
                      +-|.|+||+|||+|..++..
T Consensus         4 VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSEE
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67999999999999999853

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=82.49  E-value=0.27  Score=42.12  Aligned_cols=22  Identities=27%  Similarity=0.359  Sum_probs=19.3

Q ss_pred             CcceeCCCCCChHHHHHHHHHH
Q 007255          326 GALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      -+.+.|.+|+|||+|..++...
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4789999999999999999753

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=82.27  E-value=0.37  Score=42.31  Aligned_cols=32  Identities=19%  Similarity=0.072  Sum_probs=25.3

Q ss_pred             CcceeCC-CCCChHHHHHHHHHHh---CCcEEeecc
Q 007255          326 GALLHGP-PGCSKTTLAKAAAHAA---EASFFSLSG  357 (611)
Q Consensus       326 ~~Ll~Gp-~G~GKT~la~ala~~~---~~~~~~~~~  357 (611)
                      -+++.|- +|+|||+++-.+|..+   |..+..+++
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~   38 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKP   38 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECS
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECc
Confidence            4788898 5999999999998776   666666654

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.23  E-value=0.3  Score=47.83  Aligned_cols=25  Identities=20%  Similarity=0.373  Sum_probs=21.3

Q ss_pred             cceeCCCCCChHHHHHHHHHHhCCc
Q 007255          327 ALLHGPPGCSKTTLAKAAAHAAEAS  351 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~~~~~  351 (611)
                      -+++||.|+|||++..||+..+|..
T Consensus        28 ~~i~G~NGsGKS~ileAi~~~lg~~   52 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAISFVLGVR   52 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTC-
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCC
Confidence            3799999999999999999877643

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=82.08  E-value=0.66  Score=41.43  Aligned_cols=34  Identities=32%  Similarity=0.342  Sum_probs=23.5

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l---~~~~~~v~~   86 (611)
                      .+++++++|+|+|||+.+-..+..+   +...+.+.+
T Consensus        58 g~~~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~P   94 (237)
T d1gkub1          58 KESFAATAPTGVGKTSFGLAMSLFLALKGKRCYVIFP   94 (237)
T ss_dssp             TCCEECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEES
T ss_pred             CCCEEEEecCCChHHHHHHHHHHHHHHhcCeEEEEec
Confidence            4689999999999998766554432   444544444

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=81.87  E-value=0.25  Score=46.80  Aligned_cols=27  Identities=26%  Similarity=0.378  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhCCc
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECGAH   80 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~~~   80 (611)
                      .-|.|-|+-|+||||+++.+++.++..
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l~~~   31 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALGSRD   31 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC----C
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHhCCC
Confidence            348899999999999999999887543

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=81.67  E-value=0.21  Score=42.67  Aligned_cols=21  Identities=29%  Similarity=0.346  Sum_probs=18.5

Q ss_pred             CcceeCCCCCChHHHHHHHHH
Q 007255          326 GALLHGPPGCSKTTLAKAAAH  346 (611)
Q Consensus       326 ~~Ll~Gp~G~GKT~la~ala~  346 (611)
                      .+.|.|.||+|||+|..++.+
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            378999999999999999864

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=81.55  E-value=0.47  Score=43.53  Aligned_cols=33  Identities=27%  Similarity=0.202  Sum_probs=24.6

Q ss_pred             CCcceeCCCCCChHHHHHHHHHHh---CCcEEeecc
Q 007255          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG  357 (611)
Q Consensus       325 ~~~Ll~Gp~G~GKT~la~ala~~~---~~~~~~~~~  357 (611)
                      +-++++|.-|+|||+++-.+|..+   |..+..++.
T Consensus        21 ~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~   56 (279)
T d1ihua2          21 GLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTS   56 (279)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeC
Confidence            346788999999999888887665   666655544

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=81.31  E-value=0.47  Score=43.45  Aligned_cols=25  Identities=40%  Similarity=0.676  Sum_probs=22.0

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      ++|.+.|..|+|||||+.++....+
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g   27 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTG   27 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcC
Confidence            5899999999999999999976554

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=80.74  E-value=0.31  Score=43.29  Aligned_cols=21  Identities=29%  Similarity=0.292  Sum_probs=18.8

Q ss_pred             cceeCCCCCChHHHHHHHHHH
Q 007255          327 ALLHGPPGCSKTTLAKAAAHA  347 (611)
Q Consensus       327 ~Ll~Gp~G~GKT~la~ala~~  347 (611)
                      +||.|++|+|||++++.+...
T Consensus         9 illlG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            899999999999999988644

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=80.55  E-value=0.51  Score=43.36  Aligned_cols=26  Identities=19%  Similarity=0.234  Sum_probs=23.0

Q ss_pred             CceEEEEcCCCCcHHHHHHHHHHHhC
Q 007255           53 PRGLLLYGPPGTGKTSLVRAVVRECG   78 (611)
Q Consensus        53 ~~~iLl~Gp~GtGKT~la~~la~~l~   78 (611)
                      -+||-++|..|+|||||+.++....+
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~~g   31 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYYTG   31 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcC
Confidence            36999999999999999999987654

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=80.37  E-value=0.44  Score=41.72  Aligned_cols=26  Identities=23%  Similarity=0.123  Sum_probs=22.0

Q ss_pred             CCceEEEEcCCCCcHHHHHHHHHHHh
Q 007255           52 WPRGLLLYGPPGTGKTSLVRAVVREC   77 (611)
Q Consensus        52 ~~~~iLl~Gp~GtGKT~la~~la~~l   77 (611)
                      |.-+|.+.|.+++|||||+.++....
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~   27 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVA   27 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHh
Confidence            34689999999999999999996543

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=80.01  E-value=0.48  Score=40.36  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=19.8

Q ss_pred             ceEEEEcCCCCcHHHHHHHHHH
Q 007255           54 RGLLLYGPPGTGKTSLVRAVVR   75 (611)
Q Consensus        54 ~~iLl~Gp~GtGKT~la~~la~   75 (611)
                      .+|-++|.|++|||||++++..
T Consensus         6 inIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           6 INLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEEeCCCCcHHHHHHHHHH
Confidence            4788999999999999999974